diff --git a/modules/nf-core/abacas/main.nf b/modules/nf-core/abacas/main.nf
index 00c9169f5c7..beabc45b73f 100644
--- a/modules/nf-core/abacas/main.nf
+++ b/modules/nf-core/abacas/main.nf
@@ -2,7 +2,7 @@ process ABACAS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::abacas=1.3.1" : null)
+    conda "bioconda::abacas=1.3.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/abacas:1.3.1--pl526_0' :
         'quay.io/biocontainers/abacas:1.3.1--pl526_0' }"
diff --git a/modules/nf-core/abricate/run/main.nf b/modules/nf-core/abricate/run/main.nf
index 11992791551..05dac4465e3 100644
--- a/modules/nf-core/abricate/run/main.nf
+++ b/modules/nf-core/abricate/run/main.nf
@@ -2,7 +2,7 @@ process ABRICATE_RUN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::abricate=1.0.1" : null)
+    conda "bioconda::abricate=1.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/abricate%3A1.0.1--ha8f3691_1':
         'quay.io/biocontainers/abricate:1.0.1--ha8f3691_1' }"
diff --git a/modules/nf-core/abricate/summary/main.nf b/modules/nf-core/abricate/summary/main.nf
index 620fd42a01e..a17b827329f 100644
--- a/modules/nf-core/abricate/summary/main.nf
+++ b/modules/nf-core/abricate/summary/main.nf
@@ -2,7 +2,7 @@ process ABRICATE_SUMMARY {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::abricate=1.0.1" : null)
+    conda "bioconda::abricate=1.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/abricate%3A1.0.1--ha8f3691_1':
         'quay.io/biocontainers/abricate:1.0.1--ha8f3691_1' }"
diff --git a/modules/nf-core/adapterremoval/main.nf b/modules/nf-core/adapterremoval/main.nf
index 643c14190d8..324b4b068ad 100644
--- a/modules/nf-core/adapterremoval/main.nf
+++ b/modules/nf-core/adapterremoval/main.nf
@@ -2,7 +2,7 @@ process ADAPTERREMOVAL {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::adapterremoval=2.3.2" : null)
+    conda "bioconda::adapterremoval=2.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/adapterremoval:2.3.2--hb7ba0dd_0' :
         'quay.io/biocontainers/adapterremoval:2.3.2--hb7ba0dd_0' }"
diff --git a/modules/nf-core/adapterremovalfixprefix/main.nf b/modules/nf-core/adapterremovalfixprefix/main.nf
index 449146c86e0..be568b9ea21 100644
--- a/modules/nf-core/adapterremovalfixprefix/main.nf
+++ b/modules/nf-core/adapterremovalfixprefix/main.nf
@@ -3,7 +3,7 @@ process ADAPTERREMOVALFIXPREFIX {
     label 'process_single'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::adapterremovalfixprefix=0.0.5" : null)
+    conda "bioconda::adapterremovalfixprefix=0.0.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/adapterremovalfixprefix:0.0.5--hdfd78af_2':
         'quay.io/biocontainers/adapterremovalfixprefix:0.0.5--hdfd78af_2' }"
diff --git a/modules/nf-core/agat/convertspgff2gtf/main.nf b/modules/nf-core/agat/convertspgff2gtf/main.nf
index f9ee9f8f0d1..9f005e89e04 100644
--- a/modules/nf-core/agat/convertspgff2gtf/main.nf
+++ b/modules/nf-core/agat/convertspgff2gtf/main.nf
@@ -2,7 +2,7 @@ process AGAT_CONVERTSPGFF2GTF {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::agat=1.0.0" : null)
+    conda "bioconda::agat=1.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.0.0--pl5321hdfd78af_0' :
         'quay.io/biocontainers/agat:1.0.0--pl5321hdfd78af_0' }"
diff --git a/modules/nf-core/agat/convertspgxf2gxf/main.nf b/modules/nf-core/agat/convertspgxf2gxf/main.nf
index ed579c03f74..4961b89915e 100644
--- a/modules/nf-core/agat/convertspgxf2gxf/main.nf
+++ b/modules/nf-core/agat/convertspgxf2gxf/main.nf
@@ -2,7 +2,7 @@ process AGAT_CONVERTSPGXF2GXF {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::agat=1.0.0" : null)
+    conda "bioconda::agat=1.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.0.0--pl5321hdfd78af_0' :
         'quay.io/biocontainers/agat:1.0.0--pl5321hdfd78af_0' }"
diff --git a/modules/nf-core/agat/spstatistics/main.nf b/modules/nf-core/agat/spstatistics/main.nf
index 160da42f8f9..9f39e367dba 100644
--- a/modules/nf-core/agat/spstatistics/main.nf
+++ b/modules/nf-core/agat/spstatistics/main.nf
@@ -2,7 +2,7 @@ process AGAT_SPSTATISTICS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::agat=1.0.0" : null)
+    conda "bioconda::agat=1.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.0.0--pl5321hdfd78af_0' :
         'quay.io/biocontainers/agat:1.0.0--pl5321hdfd78af_0' }"
diff --git a/modules/nf-core/agat/sqstatbasic/main.nf b/modules/nf-core/agat/sqstatbasic/main.nf
index bf7c03e2aec..b35226a8b36 100644
--- a/modules/nf-core/agat/sqstatbasic/main.nf
+++ b/modules/nf-core/agat/sqstatbasic/main.nf
@@ -2,7 +2,7 @@ process AGAT_SQSTATBASIC {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::agat=1.0.0" : null)
+    conda "bioconda::agat=1.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agat:1.0.0--pl5321hdfd78af_0' :
         'quay.io/biocontainers/agat:1.0.0--pl5321hdfd78af_0' }"
diff --git a/modules/nf-core/agrvate/main.nf b/modules/nf-core/agrvate/main.nf
index 8503505d145..b3b89eed64d 100644
--- a/modules/nf-core/agrvate/main.nf
+++ b/modules/nf-core/agrvate/main.nf
@@ -2,7 +2,7 @@ process AGRVATE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::agrvate=1.0.2" : null)
+    conda "bioconda::agrvate=1.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/agrvate:1.0.2--hdfd78af_0' :
         'quay.io/biocontainers/agrvate:1.0.2--hdfd78af_0' }"
diff --git a/modules/nf-core/allelecounter/main.nf b/modules/nf-core/allelecounter/main.nf
index b2cb1b0c0eb..0cc0393a225 100644
--- a/modules/nf-core/allelecounter/main.nf
+++ b/modules/nf-core/allelecounter/main.nf
@@ -2,7 +2,7 @@ process ALLELECOUNTER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::cancerit-allelecount=4.3.0' : null)
+    conda "bioconda::cancerit-allelecount=4.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cancerit-allelecount:4.3.0--h41abebc_0' :
         'quay.io/biocontainers/cancerit-allelecount:4.3.0--h41abebc_0' }"
diff --git a/modules/nf-core/ampcombi/main.nf b/modules/nf-core/ampcombi/main.nf
index 80366a19ad5..e5a5814d6f3 100644
--- a/modules/nf-core/ampcombi/main.nf
+++ b/modules/nf-core/ampcombi/main.nf
@@ -2,7 +2,7 @@ process AMPCOMBI {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ampcombi=0.1.7" : null)
+    conda "bioconda::ampcombi=0.1.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ampcombi:0.1.7--pyhdfd78af_0':
         'quay.io/biocontainers/ampcombi:0.1.7--pyhdfd78af_0' }"
diff --git a/modules/nf-core/ampir/main.nf b/modules/nf-core/ampir/main.nf
index ae4c5b69c9a..19b63f66969 100644
--- a/modules/nf-core/ampir/main.nf
+++ b/modules/nf-core/ampir/main.nf
@@ -2,7 +2,7 @@ process AMPIR {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "conda-forge::r-ampir=1.1.0" : null)
+    conda "conda-forge::r-ampir=1.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/r-ampir:1.1.0':
         'quay.io/biocontainers/r-ampir:1.1.0' }"
diff --git a/modules/nf-core/amplify/predict/main.nf b/modules/nf-core/amplify/predict/main.nf
index 41c0f7aa348..1f23ac901a0 100644
--- a/modules/nf-core/amplify/predict/main.nf
+++ b/modules/nf-core/amplify/predict/main.nf
@@ -3,7 +3,7 @@ process AMPLIFY_PREDICT {
     label 'process_single'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::amplify=1.0.3" : null)
+    conda "bioconda::amplify=1.0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/amplify:1.0.3--py36hdfd78af_0':
         'quay.io/biocontainers/amplify:1.0.3--py36hdfd78af_0' }"
diff --git a/modules/nf-core/amps/main.nf b/modules/nf-core/amps/main.nf
index 57cdcff8f12..91b829a516c 100644
--- a/modules/nf-core/amps/main.nf
+++ b/modules/nf-core/amps/main.nf
@@ -1,7 +1,7 @@
 process AMPS {
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::hops=0.35" : null)
+    conda "bioconda::hops=0.35"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hops:0.35--hdfd78af_1' :
         'quay.io/biocontainers/hops:0.35--hdfd78af_1' }"
diff --git a/modules/nf-core/amrfinderplus/run/main.nf b/modules/nf-core/amrfinderplus/run/main.nf
index 3594fad9a56..6234cbbb05a 100644
--- a/modules/nf-core/amrfinderplus/run/main.nf
+++ b/modules/nf-core/amrfinderplus/run/main.nf
@@ -2,7 +2,7 @@ process AMRFINDERPLUS_RUN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ncbi-amrfinderplus=3.10.42" : null)
+    conda "bioconda::ncbi-amrfinderplus=3.10.42"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ncbi-amrfinderplus:3.10.42--h6e70893_0':
         'quay.io/biocontainers/ncbi-amrfinderplus:3.10.42--h6e70893_0' }"
diff --git a/modules/nf-core/amrfinderplus/update/main.nf b/modules/nf-core/amrfinderplus/update/main.nf
index 3ffe7270465..0fdd61e5ca6 100644
--- a/modules/nf-core/amrfinderplus/update/main.nf
+++ b/modules/nf-core/amrfinderplus/update/main.nf
@@ -2,7 +2,7 @@ process AMRFINDERPLUS_UPDATE {
     tag "update"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::ncbi-amrfinderplus=3.10.42" : null)
+    conda "bioconda::ncbi-amrfinderplus=3.10.42"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ncbi-amrfinderplus:3.10.42--h6e70893_0':
         'quay.io/biocontainers/ncbi-amrfinderplus:3.10.42--h6e70893_0' }"
diff --git a/modules/nf-core/angsd/docounts/main.nf b/modules/nf-core/angsd/docounts/main.nf
index 41c4075a1b3..52238d59d6e 100644
--- a/modules/nf-core/angsd/docounts/main.nf
+++ b/modules/nf-core/angsd/docounts/main.nf
@@ -2,7 +2,7 @@ process ANGSD_DOCOUNTS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::angsd=0.939" : null)
+    conda "bioconda::angsd=0.939"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/angsd:0.939--h468462d_0':
         'quay.io/biocontainers/angsd:0.939--h468462d_0' }"
diff --git a/modules/nf-core/antismash/antismashlite/main.nf b/modules/nf-core/antismash/antismashlite/main.nf
index 921b6e254b3..b777870878a 100644
--- a/modules/nf-core/antismash/antismashlite/main.nf
+++ b/modules/nf-core/antismash/antismashlite/main.nf
@@ -2,7 +2,7 @@ process ANTISMASH_ANTISMASHLITE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::antismash-lite=6.0.1" : null)
+    conda "bioconda::antismash-lite=6.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/antismash-lite:6.0.1--pyhdfd78af_1' :
         'quay.io/biocontainers/antismash-lite:6.0.1--pyhdfd78af_1' }"
diff --git a/modules/nf-core/antismash/antismashlitedownloaddatabases/main.nf b/modules/nf-core/antismash/antismashlitedownloaddatabases/main.nf
index 0100acc7741..40afbdf0e8c 100644
--- a/modules/nf-core/antismash/antismashlitedownloaddatabases/main.nf
+++ b/modules/nf-core/antismash/antismashlitedownloaddatabases/main.nf
@@ -1,7 +1,7 @@
 process ANTISMASH_ANTISMASHLITEDOWNLOADDATABASES {
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::antismash-lite=6.0.1" : null)
+    conda "bioconda::antismash-lite=6.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/antismash-lite:6.0.1--pyhdfd78af_1' :
         'quay.io/biocontainers/antismash-lite:6.0.1--pyhdfd78af_1' }"
diff --git a/modules/nf-core/arcashla/extract/main.nf b/modules/nf-core/arcashla/extract/main.nf
index 1b3b2ea8ff0..958b6c7fa51 100644
--- a/modules/nf-core/arcashla/extract/main.nf
+++ b/modules/nf-core/arcashla/extract/main.nf
@@ -2,7 +2,7 @@ process ARCASHLA_EXTRACT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::arcas-hla=0.5.0" : null)
+    conda "bioconda::arcas-hla=0.5.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/arcas-hla:0.5.0--hdfd78af_0':
         'quay.io/biocontainers/arcas-hla:0.5.0--hdfd78af_0' }"
diff --git a/modules/nf-core/aria2/main.nf b/modules/nf-core/aria2/main.nf
index 27437467a38..e0ee11c609f 100644
--- a/modules/nf-core/aria2/main.nf
+++ b/modules/nf-core/aria2/main.nf
@@ -3,7 +3,7 @@ process ARIA2 {
     tag "$source_url"
     label 'process_single'
 
-    conda (params.enable_conda ? "conda-forge::aria2=1.36.0" : null)
+    conda "conda-forge::aria2=1.36.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/aria2:1.36.0' :
         'quay.io/biocontainers/aria2:1.36.0' }"
diff --git a/modules/nf-core/ariba/getref/main.nf b/modules/nf-core/ariba/getref/main.nf
index 452803cfb51..08f4d2c92d1 100644
--- a/modules/nf-core/ariba/getref/main.nf
+++ b/modules/nf-core/ariba/getref/main.nf
@@ -2,7 +2,7 @@ process ARIBA_GETREF {
     tag "$db_name"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::ariba=2.14.6" : null)
+    conda "bioconda::ariba=2.14.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ariba:2.14.6--py39h67e14b5_3':
         'quay.io/biocontainers/ariba:2.14.6--py39h67e14b5_3' }"
diff --git a/modules/nf-core/ariba/run/main.nf b/modules/nf-core/ariba/run/main.nf
index 75b2ea15825..4e7c225df67 100644
--- a/modules/nf-core/ariba/run/main.nf
+++ b/modules/nf-core/ariba/run/main.nf
@@ -2,7 +2,7 @@ process ARIBA_RUN {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::ariba=2.14.6" : null)
+    conda "bioconda::ariba=2.14.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ariba:2.14.6--py39h67e14b5_3':
         'quay.io/biocontainers/ariba:2.14.6--py39h67e14b5_3' }"
diff --git a/modules/nf-core/arriba/main.nf b/modules/nf-core/arriba/main.nf
index 8c4dfcb25ef..e4b48be2905 100644
--- a/modules/nf-core/arriba/main.nf
+++ b/modules/nf-core/arriba/main.nf
@@ -2,7 +2,7 @@ process ARRIBA {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::arriba=2.3.0" : null)
+    conda "bioconda::arriba=2.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/arriba:2.3.0--haa8aa89_0' :
         'quay.io/biocontainers/arriba:2.3.0--haa8aa89_0' }"
diff --git a/modules/nf-core/artic/guppyplex/main.nf b/modules/nf-core/artic/guppyplex/main.nf
index 92ea3d5b523..9be33484cbd 100644
--- a/modules/nf-core/artic/guppyplex/main.nf
+++ b/modules/nf-core/artic/guppyplex/main.nf
@@ -2,7 +2,7 @@ process ARTIC_GUPPYPLEX {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::artic=1.2.3" : null)
+    conda "bioconda::artic=1.2.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/artic:1.2.3--pyhdfd78af_0' :
         'quay.io/biocontainers/artic:1.2.3--pyhdfd78af_0' }"
diff --git a/modules/nf-core/artic/minion/main.nf b/modules/nf-core/artic/minion/main.nf
index 779e492ea55..429a107d715 100644
--- a/modules/nf-core/artic/minion/main.nf
+++ b/modules/nf-core/artic/minion/main.nf
@@ -2,7 +2,7 @@ process ARTIC_MINION {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::artic=1.2.3" : null)
+    conda "bioconda::artic=1.2.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/artic:1.2.3--pyhdfd78af_0' :
         'quay.io/biocontainers/artic:1.2.3--pyhdfd78af_0' }"
diff --git a/modules/nf-core/ascat/main.nf b/modules/nf-core/ascat/main.nf
index df6141d0107..88ee819d148 100644
--- a/modules/nf-core/ascat/main.nf
+++ b/modules/nf-core/ascat/main.nf
@@ -2,7 +2,7 @@ process ASCAT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ascat=3.0.0 bioconda::cancerit-allelecount=4.3.0" : null)
+    conda "bioconda::ascat=3.0.0 bioconda::cancerit-allelecount=4.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-c278c7398beb73294d78639a864352abef2931ce:dfe5aaa885de434adb2b490b68972c5840c6d761-0':
         'quay.io/biocontainers/mulled-v2-c278c7398beb73294d78639a864352abef2931ce:dfe5aaa885de434adb2b490b68972c5840c6d761-0' }"
diff --git a/modules/nf-core/assemblyscan/main.nf b/modules/nf-core/assemblyscan/main.nf
index 889f92a9c5e..0c8725348d7 100644
--- a/modules/nf-core/assemblyscan/main.nf
+++ b/modules/nf-core/assemblyscan/main.nf
@@ -2,7 +2,7 @@ process ASSEMBLYSCAN {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::assembly-scan=0.4.1" : null)
+    conda "bioconda::assembly-scan=0.4.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/assembly-scan:0.4.1--pyhdfd78af_0' :
         'quay.io/biocontainers/assembly-scan:0.4.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/ataqv/ataqv/main.nf b/modules/nf-core/ataqv/ataqv/main.nf
index 9cba912fcac..e46e2b122f6 100644
--- a/modules/nf-core/ataqv/ataqv/main.nf
+++ b/modules/nf-core/ataqv/ataqv/main.nf
@@ -2,7 +2,7 @@ process ATAQV_ATAQV {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ataqv=1.3.0" : null)
+    conda "bioconda::ataqv=1.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ataqv:1.3.0--py39hccc85d7_2' :
         'quay.io/biocontainers/ataqv:1.3.0--py39hccc85d7_2' }"
diff --git a/modules/nf-core/ataqv/mkarv/main.nf b/modules/nf-core/ataqv/mkarv/main.nf
index 3a0550d4a26..be127260e07 100644
--- a/modules/nf-core/ataqv/mkarv/main.nf
+++ b/modules/nf-core/ataqv/mkarv/main.nf
@@ -1,7 +1,7 @@
 process ATAQV_MKARV {
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ataqv=1.3.0" : null)
+    conda "bioconda::ataqv=1.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ataqv:1.3.0--py39hccc85d7_2':
         'quay.io/biocontainers/ataqv:1.3.0--py39hccc85d7_2' }"
diff --git a/modules/nf-core/atlas/call/main.nf b/modules/nf-core/atlas/call/main.nf
index 30b34d34a2a..aec0eb03a7a 100644
--- a/modules/nf-core/atlas/call/main.nf
+++ b/modules/nf-core/atlas/call/main.nf
@@ -2,7 +2,7 @@ process ATLAS_CALL {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::atlas=0.9.9" : null)
+    conda "bioconda::atlas=0.9.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/atlas:0.9.9--h082e891_0':
         'quay.io/biocontainers/atlas:0.9.9--h082e891_0' }"
diff --git a/modules/nf-core/atlas/pmd/main.nf b/modules/nf-core/atlas/pmd/main.nf
index 38abc0dbc50..0c7d42c7bb3 100644
--- a/modules/nf-core/atlas/pmd/main.nf
+++ b/modules/nf-core/atlas/pmd/main.nf
@@ -2,7 +2,7 @@ process ATLAS_PMD {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::atlas=0.9.9" : null)
+    conda "bioconda::atlas=0.9.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/atlas:0.9.9--h082e891_0':
         'quay.io/biocontainers/atlas:0.9.9--h082e891_0' }"
diff --git a/modules/nf-core/atlas/recal/main.nf b/modules/nf-core/atlas/recal/main.nf
index fa3764e89d9..0be17c0084c 100644
--- a/modules/nf-core/atlas/recal/main.nf
+++ b/modules/nf-core/atlas/recal/main.nf
@@ -2,7 +2,7 @@ process ATLAS_RECAL {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::atlas=0.9.9" : null)
+    conda "bioconda::atlas=0.9.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/atlas:0.9.9--h082e891_0':
         'quay.io/biocontainers/atlas:0.9.9--h082e891_0' }"
diff --git a/modules/nf-core/atlas/splitmerge/main.nf b/modules/nf-core/atlas/splitmerge/main.nf
index b7b07bfb3c5..418e716eba5 100644
--- a/modules/nf-core/atlas/splitmerge/main.nf
+++ b/modules/nf-core/atlas/splitmerge/main.nf
@@ -2,7 +2,7 @@ process ATLAS_SPLITMERGE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::atlas=0.9.9" : null)
+    conda "bioconda::atlas=0.9.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/atlas:0.9.9--h082e891_0':
         'quay.io/biocontainers/atlas:0.9.9--h082e891_0' }"
diff --git a/modules/nf-core/atlasgeneannotationmanipulation/gtf2featureannotation/main.nf b/modules/nf-core/atlasgeneannotationmanipulation/gtf2featureannotation/main.nf
index d4caa0f40d7..9bfd5fc26c7 100644
--- a/modules/nf-core/atlasgeneannotationmanipulation/gtf2featureannotation/main.nf
+++ b/modules/nf-core/atlasgeneannotationmanipulation/gtf2featureannotation/main.nf
@@ -2,7 +2,7 @@ process ATLASGENEANNOTATIONMANIPULATION_GTF2FEATUREANNOTATION {
     tag "${meta.id}"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::atlas-gene-annotation-manipulation=1.1.0" : null)
+    conda "bioconda::atlas-gene-annotation-manipulation=1.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/atlas-gene-annotation-manipulation%3A1.1.0--hdfd78af_0':
         'quay.io/biocontainers/atlas-gene-annotation-manipulation:1.1.0--hdfd78af_0' }"
diff --git a/modules/nf-core/bakta/bakta/main.nf b/modules/nf-core/bakta/bakta/main.nf
index 275cf5d5566..520e9aad2c8 100644
--- a/modules/nf-core/bakta/bakta/main.nf
+++ b/modules/nf-core/bakta/bakta/main.nf
@@ -2,7 +2,7 @@ process BAKTA_BAKTA {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bakta=1.6.0" : null)
+    conda "bioconda::bakta=1.6.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bakta:1.6.0--pyhdfd78af_0' :
         'quay.io/biocontainers/bakta:1.6.0--pyhdfd78af_0' }"
diff --git a/modules/nf-core/bakta/baktadbdownload/main.nf b/modules/nf-core/bakta/baktadbdownload/main.nf
index 2764d3dfefb..f30058623e5 100644
--- a/modules/nf-core/bakta/baktadbdownload/main.nf
+++ b/modules/nf-core/bakta/baktadbdownload/main.nf
@@ -1,7 +1,7 @@
 process BAKTA_BAKTADBDOWNLOAD {
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bakta=1.6.0" : null)
+    conda "bioconda::bakta=1.6.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bakta:1.6.0--pyhdfd78af_0' :
         'quay.io/biocontainers/bakta:1.6.0--pyhdfd78af_0' }"
diff --git a/modules/nf-core/bamaligncleaner/main.nf b/modules/nf-core/bamaligncleaner/main.nf
index 922b72e6845..bff720277bd 100644
--- a/modules/nf-core/bamaligncleaner/main.nf
+++ b/modules/nf-core/bamaligncleaner/main.nf
@@ -2,7 +2,7 @@ process BAMALIGNCLEANER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::bamaligncleaner=0.2.1" : null)
+    conda "bioconda::bamaligncleaner=0.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bamaligncleaner:0.2.1--pyhdfd78af_0' :
         'quay.io/biocontainers/bamaligncleaner:0.2.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/bamcmp/main.nf b/modules/nf-core/bamcmp/main.nf
index 534f0d41107..f335651ff3a 100644
--- a/modules/nf-core/bamcmp/main.nf
+++ b/modules/nf-core/bamcmp/main.nf
@@ -2,7 +2,7 @@ process BAMCMP {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::bamcmp=2.2" : null)
+    conda "bioconda::bamcmp=2.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bamcmp:2.2--h05f6578_0' :
         'quay.io/biocontainers/bamcmp:2.2--h05f6578_0' }"
diff --git a/modules/nf-core/bamtools/convert/main.nf b/modules/nf-core/bamtools/convert/main.nf
index efe2849746e..2ef7b274aed 100644
--- a/modules/nf-core/bamtools/convert/main.nf
+++ b/modules/nf-core/bamtools/convert/main.nf
@@ -2,7 +2,7 @@ process BAMTOOLS_CONVERT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::bamtools=2.5.1" : null)
+    conda "bioconda::bamtools=2.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bamtools:2.5.1--h9a82719_9' :
         'quay.io/biocontainers/bamtools:2.5.1--h9a82719_9' }"
diff --git a/modules/nf-core/bamtools/split/main.nf b/modules/nf-core/bamtools/split/main.nf
index aaa5b663372..df29beebd56 100644
--- a/modules/nf-core/bamtools/split/main.nf
+++ b/modules/nf-core/bamtools/split/main.nf
@@ -2,7 +2,7 @@ process BAMTOOLS_SPLIT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::bamtools=2.5.2" : null)
+    conda "bioconda::bamtools=2.5.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bamtools:2.5.2--hd03093a_0' :
         'quay.io/biocontainers/bamtools:2.5.2--hd03093a_0' }"
diff --git a/modules/nf-core/bamtools/stats/main.nf b/modules/nf-core/bamtools/stats/main.nf
index db46ce11b5f..fe5215672b3 100644
--- a/modules/nf-core/bamtools/stats/main.nf
+++ b/modules/nf-core/bamtools/stats/main.nf
@@ -2,7 +2,7 @@ process BAMTOOLS_STATS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bamtools=2.5.1" : null)
+    conda "bioconda::bamtools=2.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bamtools:2.5.1--h9a82719_9' :
         'quay.io/biocontainers/bamtools:2.5.1--h9a82719_9' }"
diff --git a/modules/nf-core/bamutil/trimbam/main.nf b/modules/nf-core/bamutil/trimbam/main.nf
index 07203070f04..215049b139d 100644
--- a/modules/nf-core/bamutil/trimbam/main.nf
+++ b/modules/nf-core/bamutil/trimbam/main.nf
@@ -2,7 +2,7 @@ process BAMUTIL_TRIMBAM {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bamutil=1.0.15" : null)
+    conda "bioconda::bamutil=1.0.15"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bamutil:1.0.15--h2e03b76_1' :
         'quay.io/biocontainers/bamutil:1.0.15--h2e03b76_1' }"
diff --git a/modules/nf-core/bandage/image/main.nf b/modules/nf-core/bandage/image/main.nf
index ee504a129d9..e4da7336759 100644
--- a/modules/nf-core/bandage/image/main.nf
+++ b/modules/nf-core/bandage/image/main.nf
@@ -2,7 +2,7 @@ process BANDAGE_IMAGE {
     tag "${meta.id}"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::bandage=0.8.1' : null)
+    conda "bioconda::bandage=0.8.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bandage:0.8.1--hc9558a2_2' :
         'quay.io/biocontainers/bandage:0.8.1--hc9558a2_2' }"
diff --git a/modules/nf-core/bases2fastq/main.nf b/modules/nf-core/bases2fastq/main.nf
index 96af3659102..101422665fe 100644
--- a/modules/nf-core/bases2fastq/main.nf
+++ b/modules/nf-core/bases2fastq/main.nf
@@ -2,9 +2,6 @@ process BASES2FASTQ {
     tag "$meta.id"
     label 'process_high'
 
-    if (params.enable_conda) {
-        exit 1, "Conda environments cannot be used when using bases2fastq. Please use docker or singularity containers."
-    }
     container "elembio/bases2fastq:1.1.0"
 
     input:
diff --git a/modules/nf-core/bbmap/align/main.nf b/modules/nf-core/bbmap/align/main.nf
index 9cf65dab270..193d6c4cc42 100644
--- a/modules/nf-core/bbmap/align/main.nf
+++ b/modules/nf-core/bbmap/align/main.nf
@@ -2,7 +2,7 @@ process BBMAP_ALIGN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bbmap=39.01 bioconda::samtools=1.16.1 pigz=2.6" : null)
+    conda "bioconda::bbmap=39.01 bioconda::samtools=1.16.1 pigz=2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-008daec56b7aaf3f162d7866758142b9f889d690:e8a286b2e789c091bac0a57302cdc78aa0112353-0' :
         'quay.io/biocontainers/mulled-v2-008daec56b7aaf3f162d7866758142b9f889d690:e8a286b2e789c091bac0a57302cdc78aa0112353-0' }"
diff --git a/modules/nf-core/bbmap/bbduk/main.nf b/modules/nf-core/bbmap/bbduk/main.nf
index aa78014e5f3..f33d9379df4 100644
--- a/modules/nf-core/bbmap/bbduk/main.nf
+++ b/modules/nf-core/bbmap/bbduk/main.nf
@@ -2,7 +2,7 @@ process BBMAP_BBDUK {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bbmap=39.01" : null)
+    conda "bioconda::bbmap=39.01"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bbmap:39.01--h5c4e2a8_0':
         'quay.io/biocontainers/bbmap:39.01--h5c4e2a8_0' }"
diff --git a/modules/nf-core/bbmap/bbsplit/main.nf b/modules/nf-core/bbmap/bbsplit/main.nf
index 6ce8cf63da8..90f5104a1ee 100644
--- a/modules/nf-core/bbmap/bbsplit/main.nf
+++ b/modules/nf-core/bbmap/bbsplit/main.nf
@@ -1,7 +1,7 @@
 process BBMAP_BBSPLIT {
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::bbmap=39.01" : null)
+    conda "bioconda::bbmap=39.01"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bbmap:39.01--h5c4e2a8_0':
         'quay.io/biocontainers/bbmap:39.01--h5c4e2a8_0' }"
diff --git a/modules/nf-core/bbmap/clumpify/main.nf b/modules/nf-core/bbmap/clumpify/main.nf
index 9b21b001f7d..b8efbab5f21 100644
--- a/modules/nf-core/bbmap/clumpify/main.nf
+++ b/modules/nf-core/bbmap/clumpify/main.nf
@@ -3,7 +3,7 @@ process BBMAP_CLUMPIFY {
     label 'process_single'
     label 'process_high_memory'
 
-    conda (params.enable_conda ? "bioconda::bbmap=39.01" : null)
+    conda "bioconda::bbmap=39.01"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bbmap:39.01--h5c4e2a8_0':
         'quay.io/biocontainers/bbmap:39.01--h5c4e2a8_0' }"
diff --git a/modules/nf-core/bbmap/index/main.nf b/modules/nf-core/bbmap/index/main.nf
index 9e439770bed..7ebd25774ec 100644
--- a/modules/nf-core/bbmap/index/main.nf
+++ b/modules/nf-core/bbmap/index/main.nf
@@ -2,7 +2,7 @@ process BBMAP_INDEX {
     tag "$fasta"
     label 'process_long'
 
-    conda (params.enable_conda ? "bioconda::bbmap=39.01" : null)
+    conda "bioconda::bbmap=39.01"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bbmap:39.01--h5c4e2a8_0':
         'quay.io/biocontainers/bbmap:39.01--h5c4e2a8_0' }"
diff --git a/modules/nf-core/bbmap/pileup/main.nf b/modules/nf-core/bbmap/pileup/main.nf
index f81104d4502..74f1d57478f 100644
--- a/modules/nf-core/bbmap/pileup/main.nf
+++ b/modules/nf-core/bbmap/pileup/main.nf
@@ -2,7 +2,7 @@ process BBMAP_PILEUP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bbmap=39.01 bioconda::samtools=1.16.1 pigz=2.6" : null)
+    conda "bioconda::bbmap=39.01 bioconda::samtools=1.16.1 pigz=2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-008daec56b7aaf3f162d7866758142b9f889d690:e8a286b2e789c091bac0a57302cdc78aa0112353-0' :
         'quay.io/biocontainers/mulled-v2-008daec56b7aaf3f162d7866758142b9f889d690:e8a286b2e789c091bac0a57302cdc78aa0112353-0' }"
diff --git a/modules/nf-core/bcftools/annotate/main.nf b/modules/nf-core/bcftools/annotate/main.nf
index 3086408f9ab..a7e0398d353 100644
--- a/modules/nf-core/bcftools/annotate/main.nf
+++ b/modules/nf-core/bcftools/annotate/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_ANNOTATE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/concat/main.nf b/modules/nf-core/bcftools/concat/main.nf
index bca6c894c9a..7d02cec5d2a 100644
--- a/modules/nf-core/bcftools/concat/main.nf
+++ b/modules/nf-core/bcftools/concat/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_CONCAT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/consensus/main.nf b/modules/nf-core/bcftools/consensus/main.nf
index e884e358d4c..a32d94b17c9 100644
--- a/modules/nf-core/bcftools/consensus/main.nf
+++ b/modules/nf-core/bcftools/consensus/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_CONSENSUS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/convert/main.nf b/modules/nf-core/bcftools/convert/main.nf
index d188a195fdd..d748c75fbb5 100644
--- a/modules/nf-core/bcftools/convert/main.nf
+++ b/modules/nf-core/bcftools/convert/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_CONVERT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/filter/main.nf b/modules/nf-core/bcftools/filter/main.nf
index 6c17086ae6b..4e02009d292 100644
--- a/modules/nf-core/bcftools/filter/main.nf
+++ b/modules/nf-core/bcftools/filter/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_FILTER {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/index/main.nf b/modules/nf-core/bcftools/index/main.nf
index c972622b058..f1c897cde68 100644
--- a/modules/nf-core/bcftools/index/main.nf
+++ b/modules/nf-core/bcftools/index/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_INDEX {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/isec/main.nf b/modules/nf-core/bcftools/isec/main.nf
index cb9c8364ea7..67a19e71ccb 100644
--- a/modules/nf-core/bcftools/isec/main.nf
+++ b/modules/nf-core/bcftools/isec/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_ISEC {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/merge/main.nf b/modules/nf-core/bcftools/merge/main.nf
index caf15d36716..e664f0eb843 100644
--- a/modules/nf-core/bcftools/merge/main.nf
+++ b/modules/nf-core/bcftools/merge/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_MERGE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/mpileup/main.nf b/modules/nf-core/bcftools/mpileup/main.nf
index ffb6aa4a52a..c9e42c4dd5a 100644
--- a/modules/nf-core/bcftools/mpileup/main.nf
+++ b/modules/nf-core/bcftools/mpileup/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_MPILEUP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/norm/main.nf b/modules/nf-core/bcftools/norm/main.nf
index a01b339b5d8..ef95bee4a90 100644
--- a/modules/nf-core/bcftools/norm/main.nf
+++ b/modules/nf-core/bcftools/norm/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_NORM {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/query/main.nf b/modules/nf-core/bcftools/query/main.nf
index f7929232ccd..5a917b3e86b 100644
--- a/modules/nf-core/bcftools/query/main.nf
+++ b/modules/nf-core/bcftools/query/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_QUERY {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/reheader/main.nf b/modules/nf-core/bcftools/reheader/main.nf
index c4d568b138d..f9c0b183bfd 100644
--- a/modules/nf-core/bcftools/reheader/main.nf
+++ b/modules/nf-core/bcftools/reheader/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_REHEADER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/roh/main.nf b/modules/nf-core/bcftools/roh/main.nf
index b3cad8ed1df..dc516b029de 100644
--- a/modules/nf-core/bcftools/roh/main.nf
+++ b/modules/nf-core/bcftools/roh/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_ROH {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/sort/main.nf b/modules/nf-core/bcftools/sort/main.nf
index 5086a41fc95..13d75b271ac 100644
--- a/modules/nf-core/bcftools/sort/main.nf
+++ b/modules/nf-core/bcftools/sort/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_SORT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/stats/main.nf b/modules/nf-core/bcftools/stats/main.nf
index e16b5770df7..51e9c91c708 100644
--- a/modules/nf-core/bcftools/stats/main.nf
+++ b/modules/nf-core/bcftools/stats/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_STATS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcftools/view/main.nf b/modules/nf-core/bcftools/view/main.nf
index b0458ecd611..04ced9c9adb 100644
--- a/modules/nf-core/bcftools/view/main.nf
+++ b/modules/nf-core/bcftools/view/main.nf
@@ -2,7 +2,7 @@ process BCFTOOLS_VIEW {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bcftools=1.16" : null)
+    conda "bioconda::bcftools=1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bcftools:1.16--hfe4b78e_1':
         'quay.io/biocontainers/bcftools:1.16--hfe4b78e_1' }"
diff --git a/modules/nf-core/bcl2fastq/main.nf b/modules/nf-core/bcl2fastq/main.nf
index c6efced418c..7ba5b27337f 100644
--- a/modules/nf-core/bcl2fastq/main.nf
+++ b/modules/nf-core/bcl2fastq/main.nf
@@ -2,9 +2,6 @@ process BCL2FASTQ {
     tag {"$meta.lane" ? "$meta.id"+"."+"$meta.lane" : "$meta.id" }
     label 'process_high'
 
-    if (params.enable_conda) {
-        exit 1, "Conda environments cannot be used when using bcl2fastq. Please use docker or singularity containers."
-    }
     container "nfcore/bcl2fastq:2.20.0.422"
 
     input:
diff --git a/modules/nf-core/bclconvert/main.nf b/modules/nf-core/bclconvert/main.nf
index 3793674a608..519c2e8b943 100644
--- a/modules/nf-core/bclconvert/main.nf
+++ b/modules/nf-core/bclconvert/main.nf
@@ -2,9 +2,6 @@ process BCLCONVERT {
     tag {"$meta.lane" ? "$meta.id"+"."+"$meta.lane" : "$meta.id" }
     label 'process_high'
 
-    if (params.enable_conda) {
-        exit 1, "Conda environments cannot be used when using bcl-convert. Please use docker or singularity containers."
-    }
     container "nfcore/bclconvert:4.0.3"
 
     input:
diff --git a/modules/nf-core/bedtools/bamtobed/main.nf b/modules/nf-core/bedtools/bamtobed/main.nf
index fd782deca66..d90a6cc7336 100644
--- a/modules/nf-core/bedtools/bamtobed/main.nf
+++ b/modules/nf-core/bedtools/bamtobed/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_BAMTOBED {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--hc088bd4_0' :
         'quay.io/biocontainers/bedtools:2.30.0--hc088bd4_0' }"
diff --git a/modules/nf-core/bedtools/closest/main.nf b/modules/nf-core/bedtools/closest/main.nf
index 0b51f708aa7..47b45f43d48 100644
--- a/modules/nf-core/bedtools/closest/main.nf
+++ b/modules/nf-core/bedtools/closest/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_CLOSEST {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--h7d7f7ad_2':
         'quay.io/biocontainers/bedtools:2.30.0--h7d7f7ad_2' }"
diff --git a/modules/nf-core/bedtools/complement/main.nf b/modules/nf-core/bedtools/complement/main.nf
index 7e85f4237a4..41b19865163 100644
--- a/modules/nf-core/bedtools/complement/main.nf
+++ b/modules/nf-core/bedtools/complement/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_COMPLEMENT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--hc088bd4_0' :
         'quay.io/biocontainers/bedtools:2.30.0--hc088bd4_0' }"
diff --git a/modules/nf-core/bedtools/coverage/main.nf b/modules/nf-core/bedtools/coverage/main.nf
index 8ff77a4b03a..b15a5763db6 100644
--- a/modules/nf-core/bedtools/coverage/main.nf
+++ b/modules/nf-core/bedtools/coverage/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_COVERAGE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--h468198e_3':
         'quay.io/biocontainers/bedtools:2.30.0--h468198e_3' }"
diff --git a/modules/nf-core/bedtools/genomecov/main.nf b/modules/nf-core/bedtools/genomecov/main.nf
index 05e359c955b..17e38a8b358 100644
--- a/modules/nf-core/bedtools/genomecov/main.nf
+++ b/modules/nf-core/bedtools/genomecov/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_GENOMECOV {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--hc088bd4_0' :
         'quay.io/biocontainers/bedtools:2.30.0--hc088bd4_0' }"
diff --git a/modules/nf-core/bedtools/getfasta/main.nf b/modules/nf-core/bedtools/getfasta/main.nf
index 80d828ad5fa..57e7f0de06a 100644
--- a/modules/nf-core/bedtools/getfasta/main.nf
+++ b/modules/nf-core/bedtools/getfasta/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_GETFASTA {
     tag "$bed"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--hc088bd4_0' :
         'quay.io/biocontainers/bedtools:2.30.0--hc088bd4_0' }"
diff --git a/modules/nf-core/bedtools/intersect/main.nf b/modules/nf-core/bedtools/intersect/main.nf
index 0b06a1ad69c..6be4a933ecb 100644
--- a/modules/nf-core/bedtools/intersect/main.nf
+++ b/modules/nf-core/bedtools/intersect/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_INTERSECT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--hc088bd4_0' :
         'quay.io/biocontainers/bedtools:2.30.0--hc088bd4_0' }"
diff --git a/modules/nf-core/bedtools/makewindows/main.nf b/modules/nf-core/bedtools/makewindows/main.nf
index b15c38ff10f..e0c0d088055 100644
--- a/modules/nf-core/bedtools/makewindows/main.nf
+++ b/modules/nf-core/bedtools/makewindows/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_MAKEWINDOWS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--h7d7f7ad_1' :
         'quay.io/biocontainers/bedtools:2.30.0--h7d7f7ad_1' }"
diff --git a/modules/nf-core/bedtools/maskfasta/main.nf b/modules/nf-core/bedtools/maskfasta/main.nf
index 3e17a0a7c9a..a84a23c130a 100644
--- a/modules/nf-core/bedtools/maskfasta/main.nf
+++ b/modules/nf-core/bedtools/maskfasta/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_MASKFASTA {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--hc088bd4_0' :
         'quay.io/biocontainers/bedtools:2.30.0--hc088bd4_0' }"
diff --git a/modules/nf-core/bedtools/merge/main.nf b/modules/nf-core/bedtools/merge/main.nf
index 06dad8226ec..21b2e6453b8 100644
--- a/modules/nf-core/bedtools/merge/main.nf
+++ b/modules/nf-core/bedtools/merge/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_MERGE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--hc088bd4_0' :
         'quay.io/biocontainers/bedtools:2.30.0--hc088bd4_0' }"
diff --git a/modules/nf-core/bedtools/multiinter/main.nf b/modules/nf-core/bedtools/multiinter/main.nf
index 09cdd7668a6..3781186b6d6 100644
--- a/modules/nf-core/bedtools/multiinter/main.nf
+++ b/modules/nf-core/bedtools/multiinter/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_MULTIINTER {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--hc088bd4_0' :
         'quay.io/biocontainers/bedtools:2.30.0--hc088bd4_0' }"
diff --git a/modules/nf-core/bedtools/slop/main.nf b/modules/nf-core/bedtools/slop/main.nf
index d83c2377760..728aef069ed 100644
--- a/modules/nf-core/bedtools/slop/main.nf
+++ b/modules/nf-core/bedtools/slop/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_SLOP {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--hc088bd4_0' :
         'quay.io/biocontainers/bedtools:2.30.0--hc088bd4_0' }"
diff --git a/modules/nf-core/bedtools/sort/main.nf b/modules/nf-core/bedtools/sort/main.nf
index 331c129a947..71e2087d328 100644
--- a/modules/nf-core/bedtools/sort/main.nf
+++ b/modules/nf-core/bedtools/sort/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_SORT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--hc088bd4_0' :
         'quay.io/biocontainers/bedtools:2.30.0--hc088bd4_0' }"
diff --git a/modules/nf-core/bedtools/split/main.nf b/modules/nf-core/bedtools/split/main.nf
index 5830dd9dec1..e0dabb47867 100644
--- a/modules/nf-core/bedtools/split/main.nf
+++ b/modules/nf-core/bedtools/split/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_SPLIT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--h468198e_3':
         'quay.io/biocontainers/bedtools:2.30.0--h7d7f7ad_2' }"
diff --git a/modules/nf-core/bedtools/subtract/main.nf b/modules/nf-core/bedtools/subtract/main.nf
index dc05941c0c8..a76cc00e157 100644
--- a/modules/nf-core/bedtools/subtract/main.nf
+++ b/modules/nf-core/bedtools/subtract/main.nf
@@ -2,7 +2,7 @@ process BEDTOOLS_SUBTRACT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bedtools:2.30.0--hc088bd4_0' :
         'quay.io/biocontainers/bedtools:2.30.0--hc088bd4_0' }"
diff --git a/modules/nf-core/bioawk/main.nf b/modules/nf-core/bioawk/main.nf
index 3cf843dec20..c50a1e22513 100644
--- a/modules/nf-core/bioawk/main.nf
+++ b/modules/nf-core/bioawk/main.nf
@@ -2,7 +2,7 @@ process BIOAWK {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bioawk=1.0" : null)
+    conda "bioconda::bioawk=1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bioawk:1.0--h5bf99c6_6':
         'quay.io/biocontainers/bioawk:1.0--h5bf99c6_6' }"
diff --git a/modules/nf-core/biobambam/bammarkduplicates2/main.nf b/modules/nf-core/biobambam/bammarkduplicates2/main.nf
index dd0e55b692d..b715768468c 100644
--- a/modules/nf-core/biobambam/bammarkduplicates2/main.nf
+++ b/modules/nf-core/biobambam/bammarkduplicates2/main.nf
@@ -2,7 +2,7 @@ process BIOBAMBAM_BAMMARKDUPLICATES2 {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::biobambam=2.0.183" : null)
+    conda "bioconda::biobambam=2.0.183"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/biobambam:2.0.183--h9f5acd7_1' : 'quay.io/biocontainers/biobambam:2.0.183--h9f5acd7_1'}"
 
     input:
diff --git a/modules/nf-core/biobambam/bammerge/main.nf b/modules/nf-core/biobambam/bammerge/main.nf
index 75040903a46..b558d968f41 100644
--- a/modules/nf-core/biobambam/bammerge/main.nf
+++ b/modules/nf-core/biobambam/bammerge/main.nf
@@ -2,7 +2,7 @@ process BIOBAMBAM_BAMMERGE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::biobambam=2.0.183" : null)
+    conda "bioconda::biobambam=2.0.183"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/biobambam:2.0.183--h9f5acd7_1':
         'quay.io/biocontainers/biobambam:2.0.183--h9f5acd7_1' }"
diff --git a/modules/nf-core/biobambam/bamsormadup/main.nf b/modules/nf-core/biobambam/bamsormadup/main.nf
index 18406ede51d..01b3bc4cd1c 100644
--- a/modules/nf-core/biobambam/bamsormadup/main.nf
+++ b/modules/nf-core/biobambam/bamsormadup/main.nf
@@ -2,7 +2,7 @@ process BIOBAMBAM_BAMSORMADUP {
     tag "$meta.id"
     label "process_medium"
 
-    conda (params.enable_conda ? "bioconda::biobambam=2.0.183" : null)
+    conda "bioconda::biobambam=2.0.183"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/biobambam:2.0.183--h9f5acd7_1' : 'quay.io/biocontainers/biobambam:2.0.183--h9f5acd7_1'}"
 
     input:
diff --git a/modules/nf-core/biohansel/main.nf b/modules/nf-core/biohansel/main.nf
index d8b0a7f3a3b..159fef258cc 100644
--- a/modules/nf-core/biohansel/main.nf
+++ b/modules/nf-core/biohansel/main.nf
@@ -2,7 +2,7 @@ process BIOHANSEL {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::bio_hansel=2.6.1" : null)
+    conda "bioconda::bio_hansel=2.6.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bio_hansel:2.6.1--py_0':
         'quay.io/biocontainers/bio_hansel:2.6.1--py_0' }"
diff --git a/modules/nf-core/biscuit/align/main.nf b/modules/nf-core/biscuit/align/main.nf
index 41f5b4a9548..9dd68c557e9 100644
--- a/modules/nf-core/biscuit/align/main.nf
+++ b/modules/nf-core/biscuit/align/main.nf
@@ -2,7 +2,7 @@ process BISCUIT_ALIGN {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::biscuit=1.0.2.20220113 bioconda::samtools=1.15=h1170115_1" : null)
+    conda "bioconda::biscuit=1.0.2.20220113 bioconda::samtools=1.15=h1170115_1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0':
         'quay.io/biocontainers/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0' }"
diff --git a/modules/nf-core/biscuit/biscuitblaster/main.nf b/modules/nf-core/biscuit/biscuitblaster/main.nf
index d1c0e04257f..0006504c18b 100644
--- a/modules/nf-core/biscuit/biscuitblaster/main.nf
+++ b/modules/nf-core/biscuit/biscuitblaster/main.nf
@@ -2,7 +2,7 @@ process BISCUIT_BLASTER {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::biscuit=1.0.2.20220113 bioconda::samblaster=0.1.26 bioconda::samtools=1.15=h1170115_1" : null)
+    conda "bioconda::biscuit=1.0.2.20220113 bioconda::samblaster=0.1.26 bioconda::samtools=1.15=h1170115_1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0':
         'quay.io/biocontainers/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0' }"
diff --git a/modules/nf-core/biscuit/bsconv/main.nf b/modules/nf-core/biscuit/bsconv/main.nf
index 32f985b2377..c335d24ee3c 100644
--- a/modules/nf-core/biscuit/bsconv/main.nf
+++ b/modules/nf-core/biscuit/bsconv/main.nf
@@ -2,7 +2,7 @@ process BISCUIT_BSCONV {
     tag "$meta.id"
     label 'process_long'
 
-    conda (params.enable_conda ? "bioconda::biscuit=1.0.2.20220113" : null)
+    conda "bioconda::biscuit=1.0.2.20220113"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/biscuit:1.0.2.20220113--h81a5ba2_0':
         'quay.io/biocontainers/biscuit:1.0.2.20220113--h81a5ba2_0' }"
diff --git a/modules/nf-core/biscuit/epiread/main.nf b/modules/nf-core/biscuit/epiread/main.nf
index fac24410c23..dc389bc0d3b 100644
--- a/modules/nf-core/biscuit/epiread/main.nf
+++ b/modules/nf-core/biscuit/epiread/main.nf
@@ -2,7 +2,7 @@ process BISCUIT_EPIREAD {
     tag "$meta.id"
     label 'process_long'
 
-    conda (params.enable_conda ? "bioconda::biscuit=1.0.2.20220113 bioconda::samtools=1.15=h1170115_1" : null)
+    conda "bioconda::biscuit=1.0.2.20220113 bioconda::samtools=1.15=h1170115_1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0':
         'quay.io/biocontainers/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0' }"
diff --git a/modules/nf-core/biscuit/index/main.nf b/modules/nf-core/biscuit/index/main.nf
index 9aa04330bd0..0af51f32721 100644
--- a/modules/nf-core/biscuit/index/main.nf
+++ b/modules/nf-core/biscuit/index/main.nf
@@ -2,7 +2,7 @@ process BISCUIT_INDEX {
     tag "$fasta"
     label 'process_long'
 
-    conda (params.enable_conda ? "bioconda::biscuit=1.0.2.20220113" : null)
+    conda "bioconda::biscuit=1.0.2.20220113"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/biscuit:1.0.2.20220113--h81a5ba2_0':
         'quay.io/biocontainers/biscuit:1.0.2.20220113--h81a5ba2_0' }"
diff --git a/modules/nf-core/biscuit/mergecg/main.nf b/modules/nf-core/biscuit/mergecg/main.nf
index 7992e927c27..9588ac02d06 100644
--- a/modules/nf-core/biscuit/mergecg/main.nf
+++ b/modules/nf-core/biscuit/mergecg/main.nf
@@ -2,7 +2,7 @@ process BISCUIT_MERGECG {
     tag "$meta.id"
     label 'process_long'
 
-    conda (params.enable_conda ? "bioconda::biscuit=1.0.2.20220113 bioconda::samtools=1.15=h1170115_1" : null)
+    conda "bioconda::biscuit=1.0.2.20220113 bioconda::samtools=1.15=h1170115_1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0':
         'quay.io/biocontainers/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0' }"
diff --git a/modules/nf-core/biscuit/pileup/main.nf b/modules/nf-core/biscuit/pileup/main.nf
index 1bf42bbf61d..9cbd89829d9 100644
--- a/modules/nf-core/biscuit/pileup/main.nf
+++ b/modules/nf-core/biscuit/pileup/main.nf
@@ -2,7 +2,7 @@ process BISCUIT_PILEUP {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::biscuit=1.0.2.20220113 bioconda::samtools=1.15=h1170115_1" : null)
+    conda "bioconda::biscuit=1.0.2.20220113 bioconda::samtools=1.15=h1170115_1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0':
         'quay.io/biocontainers/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0' }"
diff --git a/modules/nf-core/biscuit/qc/main.nf b/modules/nf-core/biscuit/qc/main.nf
index 6a4c48d158d..12f4d83940d 100644
--- a/modules/nf-core/biscuit/qc/main.nf
+++ b/modules/nf-core/biscuit/qc/main.nf
@@ -2,7 +2,7 @@ process BISCUIT_QC {
     tag "$meta.id"
     label 'process_long'
 
-    conda (params.enable_conda ? "bioconda::biscuit=1.0.2.20220113" : null)
+    conda "bioconda::biscuit=1.0.2.20220113"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/biscuit:1.0.2.20220113--h81a5ba2_0':
         'quay.io/biocontainers/biscuit:1.0.2.20220113--h81a5ba2_0' }"
diff --git a/modules/nf-core/biscuit/vcf2bed/main.nf b/modules/nf-core/biscuit/vcf2bed/main.nf
index 7bbcc826fd6..6c5f72f1c55 100644
--- a/modules/nf-core/biscuit/vcf2bed/main.nf
+++ b/modules/nf-core/biscuit/vcf2bed/main.nf
@@ -2,7 +2,7 @@ process BISCUIT_VCF2BED {
     tag "$meta.id"
     label 'process_long'
 
-    conda (params.enable_conda ? "bioconda::biscuit=1.0.2.20220113 bioconda::samtools=1.15" : null)
+    conda "bioconda::biscuit=1.0.2.20220113 bioconda::samtools=1.15"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0':
         'quay.io/biocontainers/mulled-v2-db16f1c237a26ea9245cf9924f858974ff321d6e:17fa66297f088a1bc7560b7b90dc273bf23f2d8c-0' }"
diff --git a/modules/nf-core/bismark/align/main.nf b/modules/nf-core/bismark/align/main.nf
index eccb8550a30..a92315297b5 100644
--- a/modules/nf-core/bismark/align/main.nf
+++ b/modules/nf-core/bismark/align/main.nf
@@ -2,7 +2,7 @@ process BISMARK_ALIGN {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::bismark=0.24.0" : null)
+    conda "bioconda::bismark=0.24.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bismark:0.24.0--hdfd78af_0' :
         'quay.io/biocontainers/bismark:0.24.0--hdfd78af_0' }"
diff --git a/modules/nf-core/bismark/coverage2cytosine/main.nf b/modules/nf-core/bismark/coverage2cytosine/main.nf
index 5051f34c968..5a38b0637d0 100644
--- a/modules/nf-core/bismark/coverage2cytosine/main.nf
+++ b/modules/nf-core/bismark/coverage2cytosine/main.nf
@@ -2,7 +2,7 @@ process BISMARK_COVERAGE2CYTOSINE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::bismark=0.23.0" : null)
+    conda "bioconda::bismark=0.23.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bismark:0.24.0--hdfd78af_0' :
         'quay.io/biocontainers/bismark:0.24.0--hdfd78af_0' }"
diff --git a/modules/nf-core/bismark/deduplicate/main.nf b/modules/nf-core/bismark/deduplicate/main.nf
index be75b54d143..b9889ed491b 100644
--- a/modules/nf-core/bismark/deduplicate/main.nf
+++ b/modules/nf-core/bismark/deduplicate/main.nf
@@ -2,7 +2,7 @@ process BISMARK_DEDUPLICATE {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::bismark=0.24.0" : null)
+    conda "bioconda::bismark=0.24.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bismark:0.24.0--hdfd78af_0' :
         'quay.io/biocontainers/bismark:0.24.0--hdfd78af_0' }"
diff --git a/modules/nf-core/bismark/genomepreparation/main.nf b/modules/nf-core/bismark/genomepreparation/main.nf
index 695a10f81ab..6df704bfdfc 100644
--- a/modules/nf-core/bismark/genomepreparation/main.nf
+++ b/modules/nf-core/bismark/genomepreparation/main.nf
@@ -2,7 +2,7 @@ process BISMARK_GENOMEPREPARATION {
     tag "$fasta"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::bismark=0.24.0" : null)
+    conda "bioconda::bismark=0.24.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bismark:0.24.0--hdfd78af_0' :
         'quay.io/biocontainers/bismark:0.24.0--hdfd78af_0' }"
diff --git a/modules/nf-core/bismark/methylationextractor/main.nf b/modules/nf-core/bismark/methylationextractor/main.nf
index b8018ac707c..fb29891f72b 100644
--- a/modules/nf-core/bismark/methylationextractor/main.nf
+++ b/modules/nf-core/bismark/methylationextractor/main.nf
@@ -2,7 +2,7 @@ process BISMARK_METHYLATIONEXTRACTOR {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::bismark=0.24.0" : null)
+    conda "bioconda::bismark=0.24.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bismark:0.24.0--hdfd78af_0' :
         'quay.io/biocontainers/bismark:0.24.0--hdfd78af_0' }"
diff --git a/modules/nf-core/bismark/report/main.nf b/modules/nf-core/bismark/report/main.nf
index 744c6cd1472..c43646451db 100644
--- a/modules/nf-core/bismark/report/main.nf
+++ b/modules/nf-core/bismark/report/main.nf
@@ -2,7 +2,7 @@ process BISMARK_REPORT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::bismark=0.24.0" : null)
+    conda "bioconda::bismark=0.24.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bismark:0.24.0--hdfd78af_0' :
         'quay.io/biocontainers/bismark:0.24.0--hdfd78af_0' }"
diff --git a/modules/nf-core/bismark/summary/main.nf b/modules/nf-core/bismark/summary/main.nf
index 60854fbaf61..3e27b5d17d2 100644
--- a/modules/nf-core/bismark/summary/main.nf
+++ b/modules/nf-core/bismark/summary/main.nf
@@ -1,7 +1,7 @@
 process BISMARK_SUMMARY {
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::bismark=0.24.0" : null)
+    conda "bioconda::bismark=0.24.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bismark:0.24.0--hdfd78af_0' :
         'quay.io/biocontainers/bismark:0.24.0--hdfd78af_0' }"
diff --git a/modules/nf-core/blast/blastn/main.nf b/modules/nf-core/blast/blastn/main.nf
index af0649f6f4f..d459e5f7a3a 100644
--- a/modules/nf-core/blast/blastn/main.nf
+++ b/modules/nf-core/blast/blastn/main.nf
@@ -2,7 +2,7 @@ process BLAST_BLASTN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::blast=2.12.0' : null)
+    conda "bioconda::blast=2.12.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/blast:2.12.0--pl5262h3289130_0' :
         'quay.io/biocontainers/blast:2.12.0--pl5262h3289130_0' }"
diff --git a/modules/nf-core/blast/makeblastdb/main.nf b/modules/nf-core/blast/makeblastdb/main.nf
index 12208ea89c6..305d3e1d1e5 100644
--- a/modules/nf-core/blast/makeblastdb/main.nf
+++ b/modules/nf-core/blast/makeblastdb/main.nf
@@ -2,7 +2,7 @@ process BLAST_MAKEBLASTDB {
     tag "$fasta"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::blast=2.12.0' : null)
+    conda "bioconda::blast=2.12.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/blast:2.12.0--pl5262h3289130_0' :
         'quay.io/biocontainers/blast:2.12.0--pl5262h3289130_0' }"
diff --git a/modules/nf-core/blast/tblastn/main.nf b/modules/nf-core/blast/tblastn/main.nf
index 85c71d105a9..de5cc69fc76 100644
--- a/modules/nf-core/blast/tblastn/main.nf
+++ b/modules/nf-core/blast/tblastn/main.nf
@@ -2,7 +2,7 @@ process BLAST_TBLASTN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::blast=2.12.0' : null)
+    conda "bioconda::blast=2.12.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/blast:2.12.0--pl5262h3289130_0' :
         'quay.io/biocontainers/blast:2.12.0--pl5262h3289130_0' }"
diff --git a/modules/nf-core/bowtie/align/main.nf b/modules/nf-core/bowtie/align/main.nf
index 950c495e844..4cb6ca7a5d2 100644
--- a/modules/nf-core/bowtie/align/main.nf
+++ b/modules/nf-core/bowtie/align/main.nf
@@ -2,7 +2,7 @@ process BOWTIE_ALIGN {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::bowtie=1.3.0 bioconda::samtools=1.16.1' : null)
+    conda "bioconda::bowtie=1.3.0 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-ffbf83a6b0ab6ec567a336cf349b80637135bca3:c84c7c55c45af231883d9ff4fe706ac44c479c36-0' :
         'quay.io/biocontainers/mulled-v2-ffbf83a6b0ab6ec567a336cf349b80637135bca3:c84c7c55c45af231883d9ff4fe706ac44c479c36-0' }"
diff --git a/modules/nf-core/bowtie/build/main.nf b/modules/nf-core/bowtie/build/main.nf
index e01d9855d16..85314ec72a8 100644
--- a/modules/nf-core/bowtie/build/main.nf
+++ b/modules/nf-core/bowtie/build/main.nf
@@ -2,7 +2,7 @@ process BOWTIE_BUILD {
     tag "$fasta"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::bowtie=1.3.0' : null)
+    conda "bioconda::bowtie=1.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bowtie:1.3.0--py38hed8969a_1' :
         'quay.io/biocontainers/bowtie:1.3.0--py38hed8969a_1' }"
diff --git a/modules/nf-core/bowtie2/align/main.nf b/modules/nf-core/bowtie2/align/main.nf
index 983a3ad3bec..3d851866a30 100644
--- a/modules/nf-core/bowtie2/align/main.nf
+++ b/modules/nf-core/bowtie2/align/main.nf
@@ -2,7 +2,7 @@ process BOWTIE2_ALIGN {
     tag "$meta.id"
     label "process_high"
 
-    conda (params.enable_conda ? "bioconda::bowtie2=2.4.4 bioconda::samtools=1.16.1 conda-forge::pigz=2.6" : null)
+    conda "bioconda::bowtie2=2.4.4 bioconda::samtools=1.16.1 conda-forge::pigz=2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-ac74a7f02cebcfcc07d8e8d1d750af9c83b4d45a:a0ffedb52808e102887f6ce600d092675bf3528a-0' :
         'quay.io/biocontainers/mulled-v2-ac74a7f02cebcfcc07d8e8d1d750af9c83b4d45a:a0ffedb52808e102887f6ce600d092675bf3528a-0' }"
diff --git a/modules/nf-core/bowtie2/build/main.nf b/modules/nf-core/bowtie2/build/main.nf
index 218c174a4c2..551893af3b3 100644
--- a/modules/nf-core/bowtie2/build/main.nf
+++ b/modules/nf-core/bowtie2/build/main.nf
@@ -2,7 +2,7 @@ process BOWTIE2_BUILD {
     tag "$fasta"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::bowtie2=2.4.4' : null)
+    conda "bioconda::bowtie2=2.4.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bowtie2:2.4.4--py39hbb4e92a_0' :
         'quay.io/biocontainers/bowtie2:2.4.4--py39hbb4e92a_0' }"
diff --git a/modules/nf-core/bracken/bracken/main.nf b/modules/nf-core/bracken/bracken/main.nf
index ac7d1aff418..ddb2d6f82e3 100644
--- a/modules/nf-core/bracken/bracken/main.nf
+++ b/modules/nf-core/bracken/bracken/main.nf
@@ -4,7 +4,7 @@ process BRACKEN_BRACKEN {
 
     // WARN: Version information not provided by tool on CLI.
     // Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::bracken=2.7" : null)
+    conda "bioconda::bracken=2.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bracken:2.7--py39hc16433a_0':
         'quay.io/biocontainers/bracken:2.7--py39hc16433a_0' }"
diff --git a/modules/nf-core/bracken/combinebrackenoutputs/main.nf b/modules/nf-core/bracken/combinebrackenoutputs/main.nf
index 977030c4955..c57e6a8beeb 100644
--- a/modules/nf-core/bracken/combinebrackenoutputs/main.nf
+++ b/modules/nf-core/bracken/combinebrackenoutputs/main.nf
@@ -2,7 +2,7 @@ process BRACKEN_COMBINEBRACKENOUTPUTS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::bracken=2.7" : null)
+    conda "bioconda::bracken=2.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bracken:2.7--py39hc16433a_0':
         'quay.io/biocontainers/bracken:2.7--py39hc16433a_0' }"
diff --git a/modules/nf-core/busco/main.nf b/modules/nf-core/busco/main.nf
index 483768f14e1..e2f97366f1e 100644
--- a/modules/nf-core/busco/main.nf
+++ b/modules/nf-core/busco/main.nf
@@ -2,7 +2,7 @@ process BUSCO {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::busco=5.4.3" : null)
+    conda "bioconda::busco=5.4.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/busco:5.4.3--pyhdfd78af_0':
         'quay.io/biocontainers/busco:5.4.3--pyhdfd78af_0' }"
diff --git a/modules/nf-core/bwa/aln/main.nf b/modules/nf-core/bwa/aln/main.nf
index 83fc6a84995..f6d471c1758 100644
--- a/modules/nf-core/bwa/aln/main.nf
+++ b/modules/nf-core/bwa/aln/main.nf
@@ -2,7 +2,7 @@ process BWA_ALN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bwa=0.7.17" : null)
+    conda "bioconda::bwa=0.7.17"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bwa:0.7.17--h5bf99c6_8' :
         'quay.io/biocontainers/bwa:0.7.17--h5bf99c6_8' }"
diff --git a/modules/nf-core/bwa/index/main.nf b/modules/nf-core/bwa/index/main.nf
index 6d70fc15980..7ccf3110f16 100644
--- a/modules/nf-core/bwa/index/main.nf
+++ b/modules/nf-core/bwa/index/main.nf
@@ -2,7 +2,7 @@ process BWA_INDEX {
     tag "$fasta"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bwa=0.7.17" : null)
+    conda "bioconda::bwa=0.7.17"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bwa:0.7.17--hed695b0_7' :
         'quay.io/biocontainers/bwa:0.7.17--hed695b0_7' }"
diff --git a/modules/nf-core/bwa/mem/main.nf b/modules/nf-core/bwa/mem/main.nf
index 363d1f2e0ed..cbf34c25795 100644
--- a/modules/nf-core/bwa/mem/main.nf
+++ b/modules/nf-core/bwa/mem/main.nf
@@ -2,7 +2,7 @@ process BWA_MEM {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::bwa=0.7.17 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::bwa=0.7.17 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-fe8faa35dbf6dc65a0f7f5d4ea12e31a79f73e40:219b6c272b25e7e642ae3ff0bf0c5c81a5135ab4-0' :
         'quay.io/biocontainers/mulled-v2-fe8faa35dbf6dc65a0f7f5d4ea12e31a79f73e40:219b6c272b25e7e642ae3ff0bf0c5c81a5135ab4-0' }"
diff --git a/modules/nf-core/bwa/sampe/main.nf b/modules/nf-core/bwa/sampe/main.nf
index ec55ef447a4..cfe4529c248 100644
--- a/modules/nf-core/bwa/sampe/main.nf
+++ b/modules/nf-core/bwa/sampe/main.nf
@@ -2,7 +2,7 @@ process BWA_SAMPE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bwa=0.7.17 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::bwa=0.7.17 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-fe8faa35dbf6dc65a0f7f5d4ea12e31a79f73e40:219b6c272b25e7e642ae3ff0bf0c5c81a5135ab4-0' :
         'quay.io/biocontainers/mulled-v2-fe8faa35dbf6dc65a0f7f5d4ea12e31a79f73e40:219b6c272b25e7e642ae3ff0bf0c5c81a5135ab4-0' }"
diff --git a/modules/nf-core/bwa/samse/main.nf b/modules/nf-core/bwa/samse/main.nf
index d4296e51d69..a329c5306dc 100644
--- a/modules/nf-core/bwa/samse/main.nf
+++ b/modules/nf-core/bwa/samse/main.nf
@@ -2,7 +2,7 @@ process BWA_SAMSE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bwa=0.7.17 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::bwa=0.7.17 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-fe8faa35dbf6dc65a0f7f5d4ea12e31a79f73e40:219b6c272b25e7e642ae3ff0bf0c5c81a5135ab4-0' :
         'quay.io/biocontainers/mulled-v2-fe8faa35dbf6dc65a0f7f5d4ea12e31a79f73e40:219b6c272b25e7e642ae3ff0bf0c5c81a5135ab4-0' }"
diff --git a/modules/nf-core/bwamem2/index/main.nf b/modules/nf-core/bwamem2/index/main.nf
index 0b7ad1991e3..a236121b2a3 100644
--- a/modules/nf-core/bwamem2/index/main.nf
+++ b/modules/nf-core/bwamem2/index/main.nf
@@ -2,7 +2,7 @@ process BWAMEM2_INDEX {
     tag "$fasta"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::bwa-mem2=2.2.1" : null)
+    conda "bioconda::bwa-mem2=2.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bwa-mem2:2.2.1--he513fc3_0' :
         'quay.io/biocontainers/bwa-mem2:2.2.1--he513fc3_0' }"
diff --git a/modules/nf-core/bwamem2/mem/main.nf b/modules/nf-core/bwamem2/mem/main.nf
index 84b99dfa029..489b17043aa 100644
--- a/modules/nf-core/bwamem2/mem/main.nf
+++ b/modules/nf-core/bwamem2/mem/main.nf
@@ -2,7 +2,7 @@ process BWAMEM2_MEM {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::bwa-mem2=2.2.1 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::bwa-mem2=2.2.1 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-e5d375990341c5aef3c9aff74f96f66f65375ef6:2cdf6bf1e92acbeb9b2834b1c58754167173a410-0' :
         'quay.io/biocontainers/mulled-v2-e5d375990341c5aef3c9aff74f96f66f65375ef6:2cdf6bf1e92acbeb9b2834b1c58754167173a410-0' }"
diff --git a/modules/nf-core/bwameth/align/main.nf b/modules/nf-core/bwameth/align/main.nf
index 474d6eb0d08..1d98ca92e6f 100644
--- a/modules/nf-core/bwameth/align/main.nf
+++ b/modules/nf-core/bwameth/align/main.nf
@@ -2,7 +2,7 @@ process BWAMETH_ALIGN {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::bwameth=0.2.2" : null)
+    conda "bioconda::bwameth=0.2.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bwameth:0.2.2--py_1' :
         'quay.io/biocontainers/bwameth:0.2.2--py_1' }"
diff --git a/modules/nf-core/bwameth/index/main.nf b/modules/nf-core/bwameth/index/main.nf
index 4c1068268ae..852e9bfa054 100644
--- a/modules/nf-core/bwameth/index/main.nf
+++ b/modules/nf-core/bwameth/index/main.nf
@@ -2,7 +2,7 @@ process BWAMETH_INDEX {
     tag "$fasta"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::bwameth=0.2.2" : null)
+    conda "bioconda::bwameth=0.2.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bwameth:0.2.2--py_1' :
         'quay.io/biocontainers/bwameth:0.2.2--py_1' }"
diff --git a/modules/nf-core/calder2/main.nf b/modules/nf-core/calder2/main.nf
index a6b700e02e2..7668ea27daa 100644
--- a/modules/nf-core/calder2/main.nf
+++ b/modules/nf-core/calder2/main.nf
@@ -2,7 +2,7 @@ process CALDER2 {
     tag '$meta.id'
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::r-calder2=0.3" : null)
+    conda "bioconda::r-calder2=0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/r-calder2:0.3--r41hdfd78af_0' :
         'quay.io/biocontainers/r-calder2:0.3--r41hdfd78af_0' }"
diff --git a/modules/nf-core/cat/cat/main.nf b/modules/nf-core/cat/cat/main.nf
index 40e53f3edaa..840af4b9c6c 100644
--- a/modules/nf-core/cat/cat/main.nf
+++ b/modules/nf-core/cat/cat/main.nf
@@ -2,7 +2,7 @@ process CAT_CAT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "conda-forge::pigz=2.3.4" : null)
+    conda "conda-forge::pigz=2.3.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pigz:2.3.4' :
         'quay.io/biocontainers/pigz:2.3.4' }"
diff --git a/modules/nf-core/cat/fastq/main.nf b/modules/nf-core/cat/fastq/main.nf
index 4fa365d33e6..8a0b5600c22 100644
--- a/modules/nf-core/cat/fastq/main.nf
+++ b/modules/nf-core/cat/fastq/main.nf
@@ -2,7 +2,7 @@ process CAT_FASTQ {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "conda-forge::sed=4.7" : null)
+    conda "conda-forge::sed=4.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ubuntu:20.04' :
         'ubuntu:20.04' }"
diff --git a/modules/nf-core/cellranger/count/main.nf b/modules/nf-core/cellranger/count/main.nf
index 84e2d9218ac..dec33265e03 100644
--- a/modules/nf-core/cellranger/count/main.nf
+++ b/modules/nf-core/cellranger/count/main.nf
@@ -2,9 +2,6 @@ process CELLRANGER_COUNT {
     tag "$meta.gem"
     label 'process_high'
 
-    if (params.enable_conda) {
-        exit 1, "Conda environments cannot be used when using the Cell Ranger tool. Please use docker or singularity containers."
-    }
     container "nfcore/cellranger:7.0.0"
 
     input:
diff --git a/modules/nf-core/cellranger/mkfastq/main.nf b/modules/nf-core/cellranger/mkfastq/main.nf
index 30c638ea652..ae1cf665d8a 100644
--- a/modules/nf-core/cellranger/mkfastq/main.nf
+++ b/modules/nf-core/cellranger/mkfastq/main.nf
@@ -2,9 +2,6 @@ process CELLRANGER_MKFASTQ {
     tag "mkfastq"
     label 'process_medium'
 
-    if (params.enable_conda) {
-        exit 1, "Conda environments cannot be used when using the Cell Ranger tool. Please use docker or singularity containers."
-    }
     container "nfcore/cellrangermkfastq:7.0.0"
 
     input:
diff --git a/modules/nf-core/cellranger/mkgtf/main.nf b/modules/nf-core/cellranger/mkgtf/main.nf
index a115706dd93..2127be6ecf3 100644
--- a/modules/nf-core/cellranger/mkgtf/main.nf
+++ b/modules/nf-core/cellranger/mkgtf/main.nf
@@ -2,9 +2,6 @@ process CELLRANGER_MKGTF {
     tag "$gtf"
     label 'process_low'
 
-    if (params.enable_conda) {
-        exit 1, "Conda environments cannot be used when using the Cell Ranger tool. Please use docker or singularity containers."
-    }
     container "nfcore/cellranger:7.0.0"
 
     input:
diff --git a/modules/nf-core/cellranger/mkref/main.nf b/modules/nf-core/cellranger/mkref/main.nf
index df27d2bd29d..f8032cd50ad 100644
--- a/modules/nf-core/cellranger/mkref/main.nf
+++ b/modules/nf-core/cellranger/mkref/main.nf
@@ -2,9 +2,6 @@ process CELLRANGER_MKREF {
     tag "$fasta"
     label 'process_high'
 
-    if (params.enable_conda) {
-        exit 1, "Conda environments cannot be used when using the Cell Ranger tool. Please use docker or singularity containers."
-    }
     container "nfcore/cellranger:7.0.0"
 
     input:
diff --git a/modules/nf-core/centrifuge/centrifuge/main.nf b/modules/nf-core/centrifuge/centrifuge/main.nf
index 21092a31ea8..26c91ee1d83 100644
--- a/modules/nf-core/centrifuge/centrifuge/main.nf
+++ b/modules/nf-core/centrifuge/centrifuge/main.nf
@@ -2,7 +2,7 @@ process CENTRIFUGE_CENTRIFUGE {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::centrifuge=1.0.4_beta" : null)
+    conda "bioconda::centrifuge=1.0.4_beta"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/centrifuge:1.0.4_beta--h9a82719_6' :
         'quay.io/biocontainers/centrifuge:1.0.4_beta--h9a82719_6' }"
diff --git a/modules/nf-core/centrifuge/kreport/main.nf b/modules/nf-core/centrifuge/kreport/main.nf
index 46ed208aa07..6fcee557cba 100644
--- a/modules/nf-core/centrifuge/kreport/main.nf
+++ b/modules/nf-core/centrifuge/kreport/main.nf
@@ -2,7 +2,7 @@ process CENTRIFUGE_KREPORT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::centrifuge=1.0.4_beta" : null)
+    conda "bioconda::centrifuge=1.0.4_beta"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/centrifuge:1.0.4_beta--h9a82719_6':
         'quay.io/biocontainers/centrifuge:1.0.4_beta--h9a82719_6' }"
diff --git a/modules/nf-core/checkm/lineagewf/main.nf b/modules/nf-core/checkm/lineagewf/main.nf
index b9a10ebb4bc..85d5f7f9751 100644
--- a/modules/nf-core/checkm/lineagewf/main.nf
+++ b/modules/nf-core/checkm/lineagewf/main.nf
@@ -2,7 +2,7 @@ process CHECKM_LINEAGEWF {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::checkm-genome=1.2.1" : null)
+    conda "bioconda::checkm-genome=1.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/checkm-genome:1.2.1--pyhdfd78af_0' :
         'quay.io/biocontainers/checkm-genome:1.2.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/checkm/qa/main.nf b/modules/nf-core/checkm/qa/main.nf
index 80b9747f152..e62eb5ef682 100644
--- a/modules/nf-core/checkm/qa/main.nf
+++ b/modules/nf-core/checkm/qa/main.nf
@@ -2,7 +2,7 @@ process CHECKM_QA {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::checkm-genome=1.2.1" : null)
+    conda "bioconda::checkm-genome=1.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/checkm-genome:1.2.1--pyhdfd78af_0' :
         'quay.io/biocontainers/checkm-genome:1.2.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/checkv/downloaddatabase/main.nf b/modules/nf-core/checkv/downloaddatabase/main.nf
index 68043f0878a..eb68d609c6c 100644
--- a/modules/nf-core/checkv/downloaddatabase/main.nf
+++ b/modules/nf-core/checkv/downloaddatabase/main.nf
@@ -1,7 +1,7 @@
 process CHECKV_DOWNLOADDATABASE {
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::checkv=1.0.1" : null)
+    conda "bioconda::checkv=1.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/checkv:1.0.1--pyhdfd78af_0':
         'quay.io/biocontainers/checkv:1.0.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/checkv/endtoend/main.nf b/modules/nf-core/checkv/endtoend/main.nf
index 7c80b486a6b..a0ed2027ada 100644
--- a/modules/nf-core/checkv/endtoend/main.nf
+++ b/modules/nf-core/checkv/endtoend/main.nf
@@ -2,7 +2,7 @@ process CHECKV_ENDTOEND {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::checkv=1.0.1" : null)
+    conda "bioconda::checkv=1.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/checkv:1.0.1--pyhdfd78af_0':
         'quay.io/biocontainers/checkv:1.0.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/checkv/updatedatabase/main.nf b/modules/nf-core/checkv/updatedatabase/main.nf
index 9dac7b861d3..162699c7e6f 100644
--- a/modules/nf-core/checkv/updatedatabase/main.nf
+++ b/modules/nf-core/checkv/updatedatabase/main.nf
@@ -1,7 +1,7 @@
 process CHECKV_UPDATEDATABASE {
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::checkv=1.0.1" : null)
+    conda "bioconda::checkv=1.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/checkv:1.0.1--pyhdfd78af_0':
         'quay.io/biocontainers/checkv:1.0.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/chromap/chromap/main.nf b/modules/nf-core/chromap/chromap/main.nf
index 5425f40207d..f47995b3756 100644
--- a/modules/nf-core/chromap/chromap/main.nf
+++ b/modules/nf-core/chromap/chromap/main.nf
@@ -2,7 +2,7 @@ process CHROMAP_CHROMAP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::chromap=0.2.1 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::chromap=0.2.1 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-1f09f39f20b1c4ee36581dc81cc323c70e661633:25259bafb105193269a9fd7595434c6fbddd4d3b-0' :
         'quay.io/biocontainers/mulled-v2-1f09f39f20b1c4ee36581dc81cc323c70e661633:25259bafb105193269a9fd7595434c6fbddd4d3b-0' }"
diff --git a/modules/nf-core/chromap/index/main.nf b/modules/nf-core/chromap/index/main.nf
index c25bf9e50ed..0630c614d35 100644
--- a/modules/nf-core/chromap/index/main.nf
+++ b/modules/nf-core/chromap/index/main.nf
@@ -2,7 +2,7 @@ process CHROMAP_INDEX {
     tag "$fasta"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::chromap=0.2.1" : null)
+    conda "bioconda::chromap=0.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/chromap:0.2.1--hd03093a_0' :
         'quay.io/biocontainers/chromap:0.2.1--hd03093a_0' }"
diff --git a/modules/nf-core/circexplorer2/annotate/main.nf b/modules/nf-core/circexplorer2/annotate/main.nf
index bf836bbfa40..335723a8612 100644
--- a/modules/nf-core/circexplorer2/annotate/main.nf
+++ b/modules/nf-core/circexplorer2/annotate/main.nf
@@ -2,7 +2,7 @@ process CIRCEXPLORER2_ANNOTATE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::circexplorer2=2.3.8" : null)
+    conda "bioconda::circexplorer2=2.3.8"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/circexplorer2:2.3.8--pyh864c0ab_1':
         'quay.io/biocontainers/circexplorer2:2.3.8--pyh864c0ab_1' }"
diff --git a/modules/nf-core/circexplorer2/parse/main.nf b/modules/nf-core/circexplorer2/parse/main.nf
index 8d9dbb80506..147a73f3ec7 100644
--- a/modules/nf-core/circexplorer2/parse/main.nf
+++ b/modules/nf-core/circexplorer2/parse/main.nf
@@ -2,7 +2,7 @@ process CIRCEXPLORER2_PARSE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::circexplorer2=2.3.8" : null)
+    conda "bioconda::circexplorer2=2.3.8"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/circexplorer2:2.3.8--pyh864c0ab_1':
         'quay.io/biocontainers/circexplorer2:2.3.8--pyh864c0ab_1' }"
diff --git a/modules/nf-core/clonalframeml/main.nf b/modules/nf-core/clonalframeml/main.nf
index 24502796b9e..0416ca21fbc 100644
--- a/modules/nf-core/clonalframeml/main.nf
+++ b/modules/nf-core/clonalframeml/main.nf
@@ -2,7 +2,7 @@ process CLONALFRAMEML {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::clonalframeml=1.12" : null)
+    conda "bioconda::clonalframeml=1.12"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/clonalframeml:1.12--h7d875b9_1' :
         'quay.io/biocontainers/clonalframeml:1.12--h7d875b9_1' }"
diff --git a/modules/nf-core/cmseq/polymut/main.nf b/modules/nf-core/cmseq/polymut/main.nf
index 8a774e230d1..6b427da3640 100644
--- a/modules/nf-core/cmseq/polymut/main.nf
+++ b/modules/nf-core/cmseq/polymut/main.nf
@@ -3,7 +3,7 @@ process CMSEQ_POLYMUT {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::cmseq=1.0.4" : null)
+    conda "bioconda::cmseq=1.0.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cmseq:1.0.4--pyhb7b1952_0' :
         'quay.io/biocontainers/cmseq:1.0.4--pyhb7b1952_0' }"
diff --git a/modules/nf-core/cnvkit/antitarget/main.nf b/modules/nf-core/cnvkit/antitarget/main.nf
index bf6461bdb08..f5cd1186ee6 100644
--- a/modules/nf-core/cnvkit/antitarget/main.nf
+++ b/modules/nf-core/cnvkit/antitarget/main.nf
@@ -2,7 +2,7 @@ process CNVKIT_ANTITARGET {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::cnvkit=0.9.9" : null)
+    conda "bioconda::cnvkit=0.9.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cnvkit:0.9.9--pyhdfd78af_0':
         'quay.io/biocontainers/cnvkit:0.9.9--pyhdfd78af_0' }"
diff --git a/modules/nf-core/cnvkit/batch/main.nf b/modules/nf-core/cnvkit/batch/main.nf
index ac3ace4f699..4dc23bb47e4 100644
--- a/modules/nf-core/cnvkit/batch/main.nf
+++ b/modules/nf-core/cnvkit/batch/main.nf
@@ -2,7 +2,7 @@ process CNVKIT_BATCH {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::cnvkit=0.9.9 bioconda::samtools=1.16.1' : null)
+    conda "bioconda::cnvkit=0.9.9 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-780d630a9bb6a0ff2e7b6f730906fd703e40e98f:3bdd798e4b9aed6d3e1aaa1596c913a3eeb865cb-0' :
         'quay.io/biocontainers/mulled-v2-780d630a9bb6a0ff2e7b6f730906fd703e40e98f:3bdd798e4b9aed6d3e1aaa1596c913a3eeb865cb-0' }"
diff --git a/modules/nf-core/cnvkit/genemetrics/main.nf b/modules/nf-core/cnvkit/genemetrics/main.nf
index c48baf35568..0a9b77c1786 100755
--- a/modules/nf-core/cnvkit/genemetrics/main.nf
+++ b/modules/nf-core/cnvkit/genemetrics/main.nf
@@ -2,7 +2,7 @@ process CNVKIT_GENEMETRICS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::cnvkit=0.9.9" : null)
+    conda "bioconda::cnvkit=0.9.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cnvkit:0.9.9--pyhdfd78af_0':
         'quay.io/biocontainers/cnvkit:0.9.9--pyhdfd78af_0' }"
diff --git a/modules/nf-core/cnvkit/reference/main.nf b/modules/nf-core/cnvkit/reference/main.nf
index 10458f2786b..f04bdb2126d 100644
--- a/modules/nf-core/cnvkit/reference/main.nf
+++ b/modules/nf-core/cnvkit/reference/main.nf
@@ -2,7 +2,7 @@ process CNVKIT_REFERENCE {
     tag "$fasta"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::cnvkit=0.9.9" : null)
+    conda "bioconda::cnvkit=0.9.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cnvkit:0.9.9--pyhdfd78af_0':
         'quay.io/biocontainers/cnvkit:0.9.9--pyhdfd78af_0' }"
diff --git a/modules/nf-core/cnvpytor/callcnvs/main.nf b/modules/nf-core/cnvpytor/callcnvs/main.nf
index 021cd879629..2a92a3d27d9 100644
--- a/modules/nf-core/cnvpytor/callcnvs/main.nf
+++ b/modules/nf-core/cnvpytor/callcnvs/main.nf
@@ -2,7 +2,7 @@ process CNVPYTOR_CALLCNVS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::cnvpytor=1.2.1" : null)
+    conda "bioconda::cnvpytor=1.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cnvpytor:1.2.1--pyhdfd78af_0':
         'quay.io/biocontainers/cnvpytor:1.2.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/cnvpytor/histogram/main.nf b/modules/nf-core/cnvpytor/histogram/main.nf
index 2abb96e62df..aebb4f890f9 100644
--- a/modules/nf-core/cnvpytor/histogram/main.nf
+++ b/modules/nf-core/cnvpytor/histogram/main.nf
@@ -2,7 +2,7 @@ process CNVPYTOR_HISTOGRAM {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::cnvpytor=1.2.1" : null)
+    conda "bioconda::cnvpytor=1.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cnvpytor:1.2.1--pyhdfd78af_0':
         'quay.io/biocontainers/cnvpytor:1.2.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/cnvpytor/importreaddepth/main.nf b/modules/nf-core/cnvpytor/importreaddepth/main.nf
index fd09d1c778f..860f4f74747 100644
--- a/modules/nf-core/cnvpytor/importreaddepth/main.nf
+++ b/modules/nf-core/cnvpytor/importreaddepth/main.nf
@@ -2,7 +2,7 @@ process CNVPYTOR_IMPORTREADDEPTH {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::cnvpytor=1.2.1" : null)
+    conda "bioconda::cnvpytor=1.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cnvpytor:1.2.1--pyhdfd78af_0':
         'quay.io/biocontainers/cnvpytor:1.2.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/cnvpytor/partition/main.nf b/modules/nf-core/cnvpytor/partition/main.nf
index d32741ba382..46b46401138 100644
--- a/modules/nf-core/cnvpytor/partition/main.nf
+++ b/modules/nf-core/cnvpytor/partition/main.nf
@@ -2,7 +2,7 @@ process CNVPYTOR_PARTITION {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::cnvpytor=1.2.1" : null)
+    conda "bioconda::cnvpytor=1.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cnvpytor:1.2.1--pyhdfd78af_0':
         'quay.io/biocontainers/cnvpytor:1.2.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/cnvpytor/view/main.nf b/modules/nf-core/cnvpytor/view/main.nf
index 153f43e8c91..bf1edc9279e 100644
--- a/modules/nf-core/cnvpytor/view/main.nf
+++ b/modules/nf-core/cnvpytor/view/main.nf
@@ -2,7 +2,7 @@ process CNVPYTOR_VIEW {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::cnvpytor=1.2.1" : null)
+    conda "bioconda::cnvpytor=1.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cnvpytor:1.2.1--pyhdfd78af_0':
         'quay.io/biocontainers/cnvpytor:1.2.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/concoct/concoct/main.nf b/modules/nf-core/concoct/concoct/main.nf
index 25d835c505f..563f28fbe04 100644
--- a/modules/nf-core/concoct/concoct/main.nf
+++ b/modules/nf-core/concoct/concoct/main.nf
@@ -3,7 +3,7 @@ process CONCOCT_CONCOCT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::concoct=1.1.0" : null)
+    conda "bioconda::concoct=1.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/concoct:1.1.0--py38h7be5676_2':
         'quay.io/biocontainers/concoct:1.1.0--py38h7be5676_2' }"
diff --git a/modules/nf-core/concoct/concoctcoveragetable/main.nf b/modules/nf-core/concoct/concoctcoveragetable/main.nf
index b12f3d81fb3..5be484ae64c 100644
--- a/modules/nf-core/concoct/concoctcoveragetable/main.nf
+++ b/modules/nf-core/concoct/concoctcoveragetable/main.nf
@@ -3,7 +3,7 @@ process CONCOCT_CONCOCTCOVERAGETABLE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::concoct=1.1.0" : null)
+    conda "bioconda::concoct=1.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/concoct:1.1.0--py38h7be5676_2':
         'quay.io/biocontainers/concoct:1.1.0--py38h7be5676_2' }"
diff --git a/modules/nf-core/concoct/cutupfasta/main.nf b/modules/nf-core/concoct/cutupfasta/main.nf
index f5214c8a1e7..a765d91c3ff 100644
--- a/modules/nf-core/concoct/cutupfasta/main.nf
+++ b/modules/nf-core/concoct/cutupfasta/main.nf
@@ -3,7 +3,7 @@ process CONCOCT_CUTUPFASTA {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::concoct=1.1.0" : null)
+    conda "bioconda::concoct=1.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/concoct:1.1.0--py38h7be5676_2':
         'quay.io/biocontainers/concoct:1.1.0--py38h7be5676_2' }"
diff --git a/modules/nf-core/concoct/extractfastabins/main.nf b/modules/nf-core/concoct/extractfastabins/main.nf
index e323ab50238..da6dd91ba32 100644
--- a/modules/nf-core/concoct/extractfastabins/main.nf
+++ b/modules/nf-core/concoct/extractfastabins/main.nf
@@ -2,7 +2,7 @@ process CONCOCT_EXTRACTFASTABINS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::concoct=1.1.0" : null)
+    conda "bioconda::concoct=1.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/concoct:1.1.0--py38h7be5676_2':
         'quay.io/biocontainers/concoct:1.1.0--py38h7be5676_2' }"
diff --git a/modules/nf-core/concoct/mergecutupclustering/main.nf b/modules/nf-core/concoct/mergecutupclustering/main.nf
index 49504dd9061..dac6a0064ce 100644
--- a/modules/nf-core/concoct/mergecutupclustering/main.nf
+++ b/modules/nf-core/concoct/mergecutupclustering/main.nf
@@ -2,7 +2,7 @@ process CONCOCT_MERGECUTUPCLUSTERING {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::concoct=1.1.0" : null)
+    conda "bioconda::concoct=1.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/concoct:1.1.0--py38h7be5676_2':
         'quay.io/biocontainers/concoct:1.1.0--py38h7be5676_2' }"
diff --git a/modules/nf-core/controlfreec/assesssignificance/main.nf b/modules/nf-core/controlfreec/assesssignificance/main.nf
index 4bdb00b386b..fadbe73f9ae 100644
--- a/modules/nf-core/controlfreec/assesssignificance/main.nf
+++ b/modules/nf-core/controlfreec/assesssignificance/main.nf
@@ -2,7 +2,7 @@ process CONTROLFREEC_ASSESSSIGNIFICANCE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::control-freec=11.6" : null)
+    conda "bioconda::control-freec=11.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/control-freec:11.6--h1b792b2_1':
         'quay.io/biocontainers/control-freec:11.6--h1b792b2_1' }"
diff --git a/modules/nf-core/controlfreec/freec/main.nf b/modules/nf-core/controlfreec/freec/main.nf
index 857ffdee171..78c8b58bcea 100644
--- a/modules/nf-core/controlfreec/freec/main.nf
+++ b/modules/nf-core/controlfreec/freec/main.nf
@@ -2,7 +2,7 @@ process CONTROLFREEC_FREEC {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::control-freec=11.6" : null)
+    conda "bioconda::control-freec=11.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/control-freec:11.6--h1b792b2_1':
         'quay.io/biocontainers/control-freec:11.6--h1b792b2_1' }"
diff --git a/modules/nf-core/controlfreec/freec2bed/main.nf b/modules/nf-core/controlfreec/freec2bed/main.nf
index aefc200e811..9a70da674a2 100644
--- a/modules/nf-core/controlfreec/freec2bed/main.nf
+++ b/modules/nf-core/controlfreec/freec2bed/main.nf
@@ -2,7 +2,7 @@ process CONTROLFREEC_FREEC2BED {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::control-freec=11.6" : null)
+    conda "bioconda::control-freec=11.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/control-freec:11.6--h1b792b2_1':
         'quay.io/biocontainers/control-freec:11.6--h1b792b2_1' }"
diff --git a/modules/nf-core/controlfreec/freec2circos/main.nf b/modules/nf-core/controlfreec/freec2circos/main.nf
index 8f9be30097c..42e4d8fcaa0 100644
--- a/modules/nf-core/controlfreec/freec2circos/main.nf
+++ b/modules/nf-core/controlfreec/freec2circos/main.nf
@@ -2,7 +2,7 @@ process CONTROLFREEC_FREEC2CIRCOS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::control-freec=11.6" : null)
+    conda "bioconda::control-freec=11.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/control-freec:11.6--h1b792b2_1':
         'quay.io/biocontainers/control-freec:11.6--h1b792b2_1' }"
diff --git a/modules/nf-core/controlfreec/makegraph/main.nf b/modules/nf-core/controlfreec/makegraph/main.nf
index a8954d726ab..3c9afe5b3ec 100644
--- a/modules/nf-core/controlfreec/makegraph/main.nf
+++ b/modules/nf-core/controlfreec/makegraph/main.nf
@@ -2,7 +2,7 @@ process CONTROLFREEC_MAKEGRAPH {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::control-freec=11.6" : null)
+    conda "bioconda::control-freec=11.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/control-freec:11.6--h1b792b2_1':
         'quay.io/biocontainers/control-freec:11.6--h1b792b2_1' }"
diff --git a/modules/nf-core/cooler/balance/main.nf b/modules/nf-core/cooler/balance/main.nf
index d69e0e184a4..4173a3c1291 100644
--- a/modules/nf-core/cooler/balance/main.nf
+++ b/modules/nf-core/cooler/balance/main.nf
@@ -2,7 +2,7 @@ process COOLER_BALANCE {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::cooler=0.8.11" : null)
+    conda "bioconda::cooler=0.8.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cooler:0.8.11--pyh3252c3a_0':
         'quay.io/biocontainers/cooler:0.8.11--pyh3252c3a_0' }"
diff --git a/modules/nf-core/cooler/cload/main.nf b/modules/nf-core/cooler/cload/main.nf
index af743b080eb..80d61f07336 100644
--- a/modules/nf-core/cooler/cload/main.nf
+++ b/modules/nf-core/cooler/cload/main.nf
@@ -2,7 +2,7 @@ process COOLER_CLOAD {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::cooler=0.8.11" : null)
+    conda "bioconda::cooler=0.8.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cooler:0.8.11--pyh3252c3a_0' :
         'quay.io/biocontainers/cooler:0.8.11--pyh3252c3a_0' }"
diff --git a/modules/nf-core/cooler/digest/main.nf b/modules/nf-core/cooler/digest/main.nf
index 7e8e36f0b02..41afb250335 100644
--- a/modules/nf-core/cooler/digest/main.nf
+++ b/modules/nf-core/cooler/digest/main.nf
@@ -2,7 +2,7 @@ process COOLER_DIGEST {
     tag "$fasta"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::cooler=0.8.11" : null)
+    conda "bioconda::cooler=0.8.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cooler:0.8.11--pyh3252c3a_0' :
         'quay.io/biocontainers/cooler:0.8.11--pyh3252c3a_0' }"
diff --git a/modules/nf-core/cooler/dump/main.nf b/modules/nf-core/cooler/dump/main.nf
index cdf3fe777e1..b46c78cf35e 100644
--- a/modules/nf-core/cooler/dump/main.nf
+++ b/modules/nf-core/cooler/dump/main.nf
@@ -2,7 +2,7 @@ process COOLER_DUMP {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::cooler=0.8.11" : null)
+    conda "bioconda::cooler=0.8.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cooler:0.8.11--pyh3252c3a_0' :
         'quay.io/biocontainers/cooler:0.8.11--pyh3252c3a_0' }"
diff --git a/modules/nf-core/cooler/makebins/main.nf b/modules/nf-core/cooler/makebins/main.nf
index 73e4a836950..7f0826197e9 100644
--- a/modules/nf-core/cooler/makebins/main.nf
+++ b/modules/nf-core/cooler/makebins/main.nf
@@ -2,7 +2,7 @@ process COOLER_MAKEBINS {
     tag "${meta.id}}"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::cooler=0.8.11" : null)
+    conda "bioconda::cooler=0.8.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cooler:0.8.11--pyh3252c3a_0':
         'quay.io/biocontainers/cooler:0.8.11--pyh3252c3a_0' }"
diff --git a/modules/nf-core/cooler/merge/main.nf b/modules/nf-core/cooler/merge/main.nf
index 1e439cafbb8..1127c2fe5b7 100644
--- a/modules/nf-core/cooler/merge/main.nf
+++ b/modules/nf-core/cooler/merge/main.nf
@@ -2,7 +2,7 @@ process COOLER_MERGE {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::cooler=0.8.11" : null)
+    conda "bioconda::cooler=0.8.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cooler:0.8.11--pyh3252c3a_0' :
         'quay.io/biocontainers/cooler:0.8.11--pyh3252c3a_0' }"
diff --git a/modules/nf-core/cooler/zoomify/main.nf b/modules/nf-core/cooler/zoomify/main.nf
index 942282c0d6a..f1cd8df79d0 100644
--- a/modules/nf-core/cooler/zoomify/main.nf
+++ b/modules/nf-core/cooler/zoomify/main.nf
@@ -2,7 +2,7 @@ process COOLER_ZOOMIFY {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::cooler=0.8.11" : null)
+    conda "bioconda::cooler=0.8.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cooler:0.8.11--pyh3252c3a_0' :
         'quay.io/biocontainers/cooler:0.8.11--pyh3252c3a_0' }"
diff --git a/modules/nf-core/crumble/main.nf b/modules/nf-core/crumble/main.nf
index caf33b26d60..44768312da6 100644
--- a/modules/nf-core/crumble/main.nf
+++ b/modules/nf-core/crumble/main.nf
@@ -2,7 +2,7 @@ process CRUMBLE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::crumble=0.9.0" : null)
+    conda "bioconda::crumble=0.9.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/crumble:0.9.0--hb0d9459_1':
         'quay.io/biocontainers/crumble:0.9.0--hb0d9459_1' }"
diff --git a/modules/nf-core/csvtk/concat/main.nf b/modules/nf-core/csvtk/concat/main.nf
index f30e8332a0e..c9fb9bfaded 100644
--- a/modules/nf-core/csvtk/concat/main.nf
+++ b/modules/nf-core/csvtk/concat/main.nf
@@ -2,7 +2,7 @@ process CSVTK_CONCAT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::csvtk=0.23.0" : null)
+    conda "bioconda::csvtk=0.23.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/csvtk:0.23.0--h9ee0642_0' :
         'quay.io/biocontainers/csvtk:0.23.0--h9ee0642_0' }"
diff --git a/modules/nf-core/csvtk/split/main.nf b/modules/nf-core/csvtk/split/main.nf
index 5653d192a3f..7fa4afe0327 100644
--- a/modules/nf-core/csvtk/split/main.nf
+++ b/modules/nf-core/csvtk/split/main.nf
@@ -2,7 +2,7 @@ process CSVTK_SPLIT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::csvtk=0.23.0" : null)
+    conda "bioconda::csvtk=0.23.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/csvtk:0.23.0--h9ee0642_0' :
         'quay.io/biocontainers/csvtk:0.23.0--h9ee0642_0' }"
diff --git a/modules/nf-core/custom/dumpsoftwareversions/main.nf b/modules/nf-core/custom/dumpsoftwareversions/main.nf
index cebb6e0589a..3df21765b90 100644
--- a/modules/nf-core/custom/dumpsoftwareversions/main.nf
+++ b/modules/nf-core/custom/dumpsoftwareversions/main.nf
@@ -2,7 +2,7 @@ process CUSTOM_DUMPSOFTWAREVERSIONS {
     label 'process_single'
 
     // Requires `pyyaml` which does not have a dedicated container but is in the MultiQC container
-    conda (params.enable_conda ? 'bioconda::multiqc=1.13' : null)
+    conda "bioconda::multiqc=1.13"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/multiqc:1.13--pyhdfd78af_0' :
         'quay.io/biocontainers/multiqc:1.13--pyhdfd78af_0' }"
diff --git a/modules/nf-core/custom/getchromsizes/main.nf b/modules/nf-core/custom/getchromsizes/main.nf
index 9f1984b088e..580f87feade 100644
--- a/modules/nf-core/custom/getchromsizes/main.nf
+++ b/modules/nf-core/custom/getchromsizes/main.nf
@@ -2,7 +2,7 @@ process CUSTOM_GETCHROMSIZES {
     tag "$fasta"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/custom/matrixfilter/main.nf b/modules/nf-core/custom/matrixfilter/main.nf
index 77574b1e237..3886242918c 100644
--- a/modules/nf-core/custom/matrixfilter/main.nf
+++ b/modules/nf-core/custom/matrixfilter/main.nf
@@ -1,7 +1,7 @@
 process CUSTOM_MATRIXFILTER {
     tag "$meta"
     label 'process_single'
-    conda (params.enable_conda ? "r-base" : null)
+    conda "conda-forge::r-base=4.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/r-base:4.2.1' :
         'quay.io/biocontainers/r-base:4.2.1' }"
diff --git a/modules/nf-core/custom/sratoolsncbisettings/main.nf b/modules/nf-core/custom/sratoolsncbisettings/main.nf
index 21bf3005285..36be10d39d9 100644
--- a/modules/nf-core/custom/sratoolsncbisettings/main.nf
+++ b/modules/nf-core/custom/sratoolsncbisettings/main.nf
@@ -2,7 +2,7 @@ process CUSTOM_SRATOOLSNCBISETTINGS {
     tag 'ncbi-settings'
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::sra-tools=2.11.0' : null)
+    conda "bioconda::sra-tools=2.11.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/sra-tools:2.11.0--pl5321ha49a11a_3' :
         'quay.io/biocontainers/sra-tools:2.11.0--pl5321ha49a11a_3' }"
diff --git a/modules/nf-core/custom/tabulartogseacls/main.nf b/modules/nf-core/custom/tabulartogseacls/main.nf
index e9bdfc9a227..f5f9dbcfa1f 100644
--- a/modules/nf-core/custom/tabulartogseacls/main.nf
+++ b/modules/nf-core/custom/tabulartogseacls/main.nf
@@ -2,7 +2,7 @@ process CUSTOM_TABULARTOGSEACLS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "conda-forge::coreutils=9.1" : null)
+    conda "conda-forge::coreutils=9.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ubuntu:20.04' :
         'ubuntu:20.04' }"
diff --git a/modules/nf-core/custom/tabulartogseagct/main.nf b/modules/nf-core/custom/tabulartogseagct/main.nf
index 93e8e751af6..2aa72ef086a 100644
--- a/modules/nf-core/custom/tabulartogseagct/main.nf
+++ b/modules/nf-core/custom/tabulartogseagct/main.nf
@@ -2,7 +2,7 @@ process CUSTOM_TABULARTOGSEAGCT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "conda-forge::coreutils=9.1" : null)
+    conda "conda-forge::coreutils=9.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ubuntu:20.04' :
         'ubuntu:20.04' }"
diff --git a/modules/nf-core/cutadapt/main.nf b/modules/nf-core/cutadapt/main.nf
index 9b310c0e693..45a99ee89e0 100644
--- a/modules/nf-core/cutadapt/main.nf
+++ b/modules/nf-core/cutadapt/main.nf
@@ -2,7 +2,7 @@ process CUTADAPT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::cutadapt=3.4' : null)
+    conda "bioconda::cutadapt=3.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/cutadapt:3.4--py39h38f01e4_1' :
         'quay.io/biocontainers/cutadapt:3.4--py39h38f01e4_1' }"
diff --git a/modules/nf-core/damageprofiler/main.nf b/modules/nf-core/damageprofiler/main.nf
index 7b2392a71dd..aa607822691 100644
--- a/modules/nf-core/damageprofiler/main.nf
+++ b/modules/nf-core/damageprofiler/main.nf
@@ -2,7 +2,7 @@ process DAMAGEPROFILER {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::damageprofiler=1.1" : null)
+    conda "bioconda::damageprofiler=1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/damageprofiler:1.1--hdfd78af_2' :
         'quay.io/biocontainers/damageprofiler:1.1--hdfd78af_2' }"
diff --git a/modules/nf-core/dastool/dastool/main.nf b/modules/nf-core/dastool/dastool/main.nf
index a7d9c6f6e18..2e75e47e26f 100644
--- a/modules/nf-core/dastool/dastool/main.nf
+++ b/modules/nf-core/dastool/dastool/main.nf
@@ -2,7 +2,7 @@ process DASTOOL_DASTOOL {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::das_tool=1.1.4" : null)
+    conda "bioconda::das_tool=1.1.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/das_tool:1.1.4--r41hdfd78af_1' :
         'quay.io/biocontainers/das_tool:1.1.4--r41hdfd78af_1' }"
diff --git a/modules/nf-core/dastool/fastatocontig2bin/main.nf b/modules/nf-core/dastool/fastatocontig2bin/main.nf
index d9e88be778e..cc5b09f24ad 100644
--- a/modules/nf-core/dastool/fastatocontig2bin/main.nf
+++ b/modules/nf-core/dastool/fastatocontig2bin/main.nf
@@ -2,7 +2,7 @@ process DASTOOL_FASTATOCONTIG2BIN {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::das_tool=1.1.4" : null)
+    conda "bioconda::das_tool=1.1.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/das_tool:1.1.4--r41hdfd78af_1' :
         'quay.io/biocontainers/das_tool:1.1.4--r41hdfd78af_1' }"
diff --git a/modules/nf-core/dastool/scaffolds2bin/main.nf b/modules/nf-core/dastool/scaffolds2bin/main.nf
index 36c287208d8..e3742543f38 100644
--- a/modules/nf-core/dastool/scaffolds2bin/main.nf
+++ b/modules/nf-core/dastool/scaffolds2bin/main.nf
@@ -2,7 +2,7 @@ process DASTOOL_SCAFFOLDS2BIN {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::das_tool=1.1.3" : null)
+    conda "bioconda::das_tool=1.1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/das_tool:1.1.3--r41hdfd78af_0' :
         'quay.io/biocontainers/das_tool:1.1.3--r41hdfd78af_0' }"
diff --git a/modules/nf-core/dedup/main.nf b/modules/nf-core/dedup/main.nf
index 7dbbd6da282..7bc4ecf1c73 100644
--- a/modules/nf-core/dedup/main.nf
+++ b/modules/nf-core/dedup/main.nf
@@ -2,7 +2,7 @@ process DEDUP {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::dedup=0.12.8" : null)
+    conda "bioconda::dedup=0.12.8"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/dedup:0.12.8--hdfd78af_1' :
         'quay.io/biocontainers/dedup:0.12.8--hdfd78af_1' }"
diff --git a/modules/nf-core/deeparg/downloaddata/main.nf b/modules/nf-core/deeparg/downloaddata/main.nf
index c06e623cbeb..95bd6480f10 100644
--- a/modules/nf-core/deeparg/downloaddata/main.nf
+++ b/modules/nf-core/deeparg/downloaddata/main.nf
@@ -1,7 +1,7 @@
 process DEEPARG_DOWNLOADDATA {
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::deeparg=1.0.2" : null)
+    conda "bioconda::deeparg=1.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/deeparg:1.0.2--pyhdfd78af_1' :
         'quay.io/biocontainers/deeparg:1.0.2--pyhdfd78af_1' }"
diff --git a/modules/nf-core/deeparg/predict/main.nf b/modules/nf-core/deeparg/predict/main.nf
index 7aef879fc58..d218317069b 100644
--- a/modules/nf-core/deeparg/predict/main.nf
+++ b/modules/nf-core/deeparg/predict/main.nf
@@ -2,7 +2,7 @@ process DEEPARG_PREDICT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::deeparg=1.0.2" : null)
+    conda "bioconda::deeparg=1.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/deeparg:1.0.2--pyhdfd78af_1' :
         'quay.io/biocontainers/deeparg:1.0.2--pyhdfd78af_1' }"
diff --git a/modules/nf-core/deepbgc/download/main.nf b/modules/nf-core/deepbgc/download/main.nf
index 702e3c989f5..f3282fc4c24 100644
--- a/modules/nf-core/deepbgc/download/main.nf
+++ b/modules/nf-core/deepbgc/download/main.nf
@@ -1,7 +1,7 @@
 process DEEPBGC_DOWNLOAD {
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::deepbgc=0.1.30" : null)
+    conda "bioconda::deepbgc=0.1.30"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/deepbgc:0.1.30--pyhb7b1952_1':
         'quay.io/biocontainers/deepbgc:0.1.30--pyhb7b1952_1' }"
diff --git a/modules/nf-core/deepbgc/pipeline/main.nf b/modules/nf-core/deepbgc/pipeline/main.nf
index a4def2ce413..a0683ef7055 100644
--- a/modules/nf-core/deepbgc/pipeline/main.nf
+++ b/modules/nf-core/deepbgc/pipeline/main.nf
@@ -2,7 +2,7 @@ process DEEPBGC_PIPELINE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::deepbgc=0.1.30" : null)
+    conda "bioconda::deepbgc=0.1.30"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/deepbgc:0.1.30--pyhb7b1952_1':
         'quay.io/biocontainers/deepbgc:0.1.30--pyhb7b1952_1' }"
diff --git a/modules/nf-core/deeptools/bamcoverage/main.nf b/modules/nf-core/deeptools/bamcoverage/main.nf
index cd9f53db6e5..23eff349306 100644
--- a/modules/nf-core/deeptools/bamcoverage/main.nf
+++ b/modules/nf-core/deeptools/bamcoverage/main.nf
@@ -2,7 +2,7 @@ process DEEPTOOLS_BAMCOVERAGE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::deeptools=3.5.1 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::deeptools=3.5.1 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-eb9e7907c7a753917c1e4d7a64384c047429618a:62d1ebe2d3a2a9d1a7ad31e0b902983fa7c25fa7-0':
         'quay.io/biocontainers/mulled-v2-eb9e7907c7a753917c1e4d7a64384c047429618a:62d1ebe2d3a2a9d1a7ad31e0b902983fa7c25fa7-0' }"
diff --git a/modules/nf-core/deeptools/computematrix/main.nf b/modules/nf-core/deeptools/computematrix/main.nf
index 96dfef3c602..024b879763d 100644
--- a/modules/nf-core/deeptools/computematrix/main.nf
+++ b/modules/nf-core/deeptools/computematrix/main.nf
@@ -2,7 +2,7 @@ process DEEPTOOLS_COMPUTEMATRIX {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::deeptools=3.5.1' : null)
+    conda "bioconda::deeptools=3.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/deeptools:3.5.1--py_0' :
         'quay.io/biocontainers/deeptools:3.5.1--py_0' }"
diff --git a/modules/nf-core/deeptools/multibamsummary/main.nf b/modules/nf-core/deeptools/multibamsummary/main.nf
index 465c209a588..e70eab6d67e 100644
--- a/modules/nf-core/deeptools/multibamsummary/main.nf
+++ b/modules/nf-core/deeptools/multibamsummary/main.nf
@@ -2,7 +2,7 @@ process DEEPTOOLS_MULTIBAMSUMMARY {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::deeptools=3.5.1' : null)
+    conda "bioconda::deeptools=3.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/deeptools:3.5.1--py_0' :
         'quay.io/biocontainers/deeptools:3.5.1--py_0' }"
diff --git a/modules/nf-core/deeptools/plotcorrelation/main.nf b/modules/nf-core/deeptools/plotcorrelation/main.nf
index 487bb22c57d..5c934ca0d68 100644
--- a/modules/nf-core/deeptools/plotcorrelation/main.nf
+++ b/modules/nf-core/deeptools/plotcorrelation/main.nf
@@ -2,7 +2,7 @@ process DEEPTOOLS_PLOTCORRELATION {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::deeptools=3.5.1' : null)
+    conda "bioconda::deeptools=3.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/deeptools:3.5.1--py_0' :
         'quay.io/biocontainers/deeptools:3.5.1--py_0' }"
diff --git a/modules/nf-core/deeptools/plotfingerprint/main.nf b/modules/nf-core/deeptools/plotfingerprint/main.nf
index 83613be7b3d..233b3bae01c 100644
--- a/modules/nf-core/deeptools/plotfingerprint/main.nf
+++ b/modules/nf-core/deeptools/plotfingerprint/main.nf
@@ -2,7 +2,7 @@ process DEEPTOOLS_PLOTFINGERPRINT {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::deeptools=3.5.1' : null)
+    conda "bioconda::deeptools=3.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/deeptools:3.5.1--py_0' :
         'quay.io/biocontainers/deeptools:3.5.1--py_0' }"
diff --git a/modules/nf-core/deeptools/plotheatmap/main.nf b/modules/nf-core/deeptools/plotheatmap/main.nf
index 1e402e3919c..3b171b73018 100644
--- a/modules/nf-core/deeptools/plotheatmap/main.nf
+++ b/modules/nf-core/deeptools/plotheatmap/main.nf
@@ -2,7 +2,7 @@ process DEEPTOOLS_PLOTHEATMAP {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::deeptools=3.5.1' : null)
+    conda "bioconda::deeptools=3.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/deeptools:3.5.1--py_0' :
         'quay.io/biocontainers/deeptools:3.5.1--py_0' }"
diff --git a/modules/nf-core/deeptools/plotpca/main.nf b/modules/nf-core/deeptools/plotpca/main.nf
index a2193183ffd..69634978c71 100644
--- a/modules/nf-core/deeptools/plotpca/main.nf
+++ b/modules/nf-core/deeptools/plotpca/main.nf
@@ -2,7 +2,7 @@ process DEEPTOOLS_PLOTPCA {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::deeptools=3.5.1' : null)
+    conda "bioconda::deeptools=3.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/deeptools:3.5.1--py_0' :
         'quay.io/biocontainers/deeptools:3.5.1--py_0' }"
diff --git a/modules/nf-core/deeptools/plotprofile/main.nf b/modules/nf-core/deeptools/plotprofile/main.nf
index d83a9493876..b5fa57df651 100644
--- a/modules/nf-core/deeptools/plotprofile/main.nf
+++ b/modules/nf-core/deeptools/plotprofile/main.nf
@@ -2,7 +2,7 @@ process DEEPTOOLS_PLOTPROFILE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::deeptools=3.5.1' : null)
+    conda "bioconda::deeptools=3.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/deeptools:3.5.1--py_0' :
         'quay.io/biocontainers/deeptools:3.5.1--py_0' }"
diff --git a/modules/nf-core/deepvariant/main.nf b/modules/nf-core/deepvariant/main.nf
index de48d9c1e4d..b37d0752a3f 100644
--- a/modules/nf-core/deepvariant/main.nf
+++ b/modules/nf-core/deepvariant/main.nf
@@ -2,11 +2,6 @@ process DEEPVARIANT {
     tag "$meta.id"
     label 'process_medium'
 
-
-    if (params.enable_conda) {
-        exit 1, "Conda environments cannot be used with DeepVariant at the moment. Please use Docker or Singularity containers."
-    }
-
     container "google/deepvariant:1.4.0"
 
     input:
diff --git a/modules/nf-core/delly/call/main.nf b/modules/nf-core/delly/call/main.nf
index 57bb537a21c..98eab92441f 100644
--- a/modules/nf-core/delly/call/main.nf
+++ b/modules/nf-core/delly/call/main.nf
@@ -2,7 +2,7 @@ process DELLY_CALL {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::delly=1.1.5" : null)
+    conda "bioconda::delly=1.1.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/delly:1.1.5--h358d541_0' :
         'quay.io/biocontainers/delly:1.1.5--h358d541_0' }"
diff --git a/modules/nf-core/deseq2/differential/main.nf b/modules/nf-core/deseq2/differential/main.nf
index 6221c7854ab..303fbdbdf42 100644
--- a/modules/nf-core/deseq2/differential/main.nf
+++ b/modules/nf-core/deseq2/differential/main.nf
@@ -2,7 +2,7 @@ process DESEQ2_DIFFERENTIAL {
     tag "$meta"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::bioconductor-deseq2=1.34.0" : null)
+    conda "bioconda::bioconductor-deseq2=1.34.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/bioconductor-deseq2:1.34.0--r41hc247a5b_3' :
         'quay.io/biocontainers/bioconductor-deseq2:1.34.0--r41hc247a5b_3' }"
diff --git a/modules/nf-core/diamond/blastp/main.nf b/modules/nf-core/diamond/blastp/main.nf
index 25b0e4bdd74..0db405012a9 100644
--- a/modules/nf-core/diamond/blastp/main.nf
+++ b/modules/nf-core/diamond/blastp/main.nf
@@ -2,7 +2,7 @@ process DIAMOND_BLASTP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::diamond=2.0.15" : null)
+    conda "bioconda::diamond=2.0.15"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/diamond:2.0.15--hb97b32f_0' :
         'quay.io/biocontainers/diamond:2.0.15--hb97b32f_0' }"
diff --git a/modules/nf-core/diamond/blastx/main.nf b/modules/nf-core/diamond/blastx/main.nf
index d6e845f2c70..e305b57457e 100644
--- a/modules/nf-core/diamond/blastx/main.nf
+++ b/modules/nf-core/diamond/blastx/main.nf
@@ -2,7 +2,7 @@ process DIAMOND_BLASTX {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::diamond=2.0.15" : null)
+    conda "bioconda::diamond=2.0.15"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/diamond:2.0.15--hb97b32f_0' :
         'quay.io/biocontainers/diamond:2.0.15--hb97b32f_0' }"
diff --git a/modules/nf-core/diamond/makedb/main.nf b/modules/nf-core/diamond/makedb/main.nf
index a76a94e5c95..6f3ab3c36e4 100644
--- a/modules/nf-core/diamond/makedb/main.nf
+++ b/modules/nf-core/diamond/makedb/main.nf
@@ -2,7 +2,7 @@ process DIAMOND_MAKEDB {
     tag "$fasta"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::diamond=2.0.15" : null)
+    conda "bioconda::diamond=2.0.15"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/diamond:2.0.15--hb97b32f_0' :
         'quay.io/biocontainers/diamond:2.0.15--hb97b32f_0' }"
diff --git a/modules/nf-core/dragmap/align/main.nf b/modules/nf-core/dragmap/align/main.nf
index 623897a5d4b..22e4b7c1456 100644
--- a/modules/nf-core/dragmap/align/main.nf
+++ b/modules/nf-core/dragmap/align/main.nf
@@ -2,7 +2,7 @@ process DRAGMAP_ALIGN {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::dragmap=1.3.0 bioconda::samtools=1.16.1 conda-forge::pigz=2.3.4" : null)
+    conda "bioconda::dragmap=1.3.0 bioconda::samtools=1.16.1 conda-forge::pigz=2.3.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-580d344d9d4a496cd403932da8765f9e0187774d:bb7e33c2ede38421063b8379a5fb3453645bb047-0':
         'quay.io/biocontainers/mulled-v2-580d344d9d4a496cd403932da8765f9e0187774d:bb7e33c2ede38421063b8379a5fb3453645bb047-0' }"
diff --git a/modules/nf-core/dragmap/hashtable/main.nf b/modules/nf-core/dragmap/hashtable/main.nf
index 08d73f9041d..e64ea487f11 100644
--- a/modules/nf-core/dragmap/hashtable/main.nf
+++ b/modules/nf-core/dragmap/hashtable/main.nf
@@ -2,7 +2,7 @@ process DRAGMAP_HASHTABLE {
     tag "$fasta"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::dragmap=1.3.0" : null)
+    conda "bioconda::dragmap=1.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/dragmap:1.3.0--h72d16da_1':
         'quay.io/biocontainers/dragmap:1.3.0--h72d16da_1' }"
diff --git a/modules/nf-core/dragonflye/main.nf b/modules/nf-core/dragonflye/main.nf
index 91b009d45c4..4081a0ef4ef 100644
--- a/modules/nf-core/dragonflye/main.nf
+++ b/modules/nf-core/dragonflye/main.nf
@@ -2,7 +2,7 @@ process DRAGONFLYE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::dragonflye=1.0.11" : null)
+    conda "bioconda::dragonflye=1.0.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/dragonflye:1.0.11--hdfd78af_0' :
         'quay.io/biocontainers/dragonflye:1.0.11--hdfd78af_0' }"
diff --git a/modules/nf-core/dshbio/exportsegments/main.nf b/modules/nf-core/dshbio/exportsegments/main.nf
index d2e83a9e756..61495c66995 100644
--- a/modules/nf-core/dshbio/exportsegments/main.nf
+++ b/modules/nf-core/dshbio/exportsegments/main.nf
@@ -2,7 +2,7 @@ process DSHBIO_EXPORTSEGMENTS {
     tag "${meta.id}"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::dsh-bio=2.1" : null)
+    conda "bioconda::dsh-bio=2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/dsh-bio:2.1--hdfd78af_0' :
         'quay.io/biocontainers/dsh-bio:2.1--hdfd78af_0' }"
diff --git a/modules/nf-core/dshbio/filterbed/main.nf b/modules/nf-core/dshbio/filterbed/main.nf
index 74dba7c4ec0..34f302fd6b2 100644
--- a/modules/nf-core/dshbio/filterbed/main.nf
+++ b/modules/nf-core/dshbio/filterbed/main.nf
@@ -2,7 +2,7 @@ process DSHBIO_FILTERBED {
     tag "${meta.id}"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::dsh-bio=2.1" : null)
+    conda "bioconda::dsh-bio=2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/dsh-bio:2.1--hdfd78af_0' :
         'quay.io/biocontainers/dsh-bio:2.1--hdfd78af_0' }"
diff --git a/modules/nf-core/dshbio/filtergff3/main.nf b/modules/nf-core/dshbio/filtergff3/main.nf
index 155ec399b76..a1fddd04b9a 100644
--- a/modules/nf-core/dshbio/filtergff3/main.nf
+++ b/modules/nf-core/dshbio/filtergff3/main.nf
@@ -2,7 +2,7 @@ process DSHBIO_FILTERGFF3 {
     tag "${meta.id}"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::dsh-bio=2.1" : null)
+    conda "bioconda::dsh-bio=2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/dsh-bio:2.1--hdfd78af_0' :
         'quay.io/biocontainers/dsh-bio:2.1--hdfd78af_0' }"
diff --git a/modules/nf-core/dshbio/splitbed/main.nf b/modules/nf-core/dshbio/splitbed/main.nf
index 409df2e8247..24a80cef568 100644
--- a/modules/nf-core/dshbio/splitbed/main.nf
+++ b/modules/nf-core/dshbio/splitbed/main.nf
@@ -2,7 +2,7 @@ process DSHBIO_SPLITBED {
     tag "${meta.id}"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::dsh-bio=2.1" : null)
+    conda "bioconda::dsh-bio=2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/dsh-bio:2.1--hdfd78af_0' :
         'quay.io/biocontainers/dsh-bio:2.1--hdfd78af_0' }"
diff --git a/modules/nf-core/dshbio/splitgff3/main.nf b/modules/nf-core/dshbio/splitgff3/main.nf
index 4e92306944d..ff9923e7546 100644
--- a/modules/nf-core/dshbio/splitgff3/main.nf
+++ b/modules/nf-core/dshbio/splitgff3/main.nf
@@ -2,7 +2,7 @@ process DSHBIO_SPLITGFF3 {
     tag "${meta.id}"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::dsh-bio=2.1" : null)
+    conda "bioconda::dsh-bio=2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/dsh-bio:2.1--hdfd78af_0' :
         'quay.io/biocontainers/dsh-bio:2.1--hdfd78af_0' }"
diff --git a/modules/nf-core/duphold/main.nf b/modules/nf-core/duphold/main.nf
index 68e793cb998..fc2d0798b59 100644
--- a/modules/nf-core/duphold/main.nf
+++ b/modules/nf-core/duphold/main.nf
@@ -2,7 +2,7 @@ process DUPHOLD {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::duphold=0.2.1" : null)
+    conda "bioconda::duphold=0.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/duphold:0.2.1--h516909a_1':
         'quay.io/biocontainers/duphold:0.2.1--h516909a_1' }"
diff --git a/modules/nf-core/ectyper/main.nf b/modules/nf-core/ectyper/main.nf
index 34973ee6c9b..d51caba682c 100644
--- a/modules/nf-core/ectyper/main.nf
+++ b/modules/nf-core/ectyper/main.nf
@@ -2,7 +2,7 @@ process ECTYPER {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ectyper=1.0.0" : null)
+    conda "bioconda::ectyper=1.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ectyper:1.0.0--pyhdfd78af_1' :
         'quay.io/biocontainers/ectyper:1.0.0--pyhdfd78af_1' }"
diff --git a/modules/nf-core/eido/convert/main.nf b/modules/nf-core/eido/convert/main.nf
index 7ec4b8cdd0f..dbbe142d013 100644
--- a/modules/nf-core/eido/convert/main.nf
+++ b/modules/nf-core/eido/convert/main.nf
@@ -2,7 +2,7 @@ process EIDO_CONVERT {
     tag "$samplesheet"
     label 'process_single'
 
-    conda (params.enable_conda ? "conda-forge::eido=0.1.9" : null)
+    conda "conda-forge::eido=0.1.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://containers.biocontainers.pro/s3/SingImgsRepo/eido/0.1.9_cv1/eido_0.1.9_cv1.sif' :
         'biocontainers/eido:0.1.9_cv1' }"
diff --git a/modules/nf-core/eido/validate/main.nf b/modules/nf-core/eido/validate/main.nf
index 798d3a05bf9..466bcc96402 100644
--- a/modules/nf-core/eido/validate/main.nf
+++ b/modules/nf-core/eido/validate/main.nf
@@ -2,7 +2,7 @@ process EIDO_VALIDATE {
     tag "$samplesheet"
     label 'process_single'
 
-    conda (params.enable_conda ? "conda-forge::eido=0.1.9" : null)
+    conda "conda-forge::eido=0.1.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://containers.biocontainers.pro/s3/SingImgsRepo/eido/0.1.9_cv2/eido_0.1.9_cv2.sif' :
         'biocontainers/eido:0.1.9_cv2' }"
diff --git a/modules/nf-core/eigenstratdatabasetools/eigenstratsnpcoverage/main.nf b/modules/nf-core/eigenstratdatabasetools/eigenstratsnpcoverage/main.nf
index ed27d40e6b1..345436fdde7 100644
--- a/modules/nf-core/eigenstratdatabasetools/eigenstratsnpcoverage/main.nf
+++ b/modules/nf-core/eigenstratdatabasetools/eigenstratsnpcoverage/main.nf
@@ -2,7 +2,7 @@ process EIGENSTRATDATABASETOOLS_EIGENSTRATSNPCOVERAGE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::eigenstratdatabasetools=1.1.0" : null)
+    conda "bioconda::eigenstratdatabasetools=1.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/eigenstratdatabasetools:1.1.0--hdfd78af_0':
         'quay.io/biocontainers/eigenstratdatabasetools:1.1.0--hdfd78af_0' }"
diff --git a/modules/nf-core/elprep/filter/main.nf b/modules/nf-core/elprep/filter/main.nf
index 5ca288bc3fe..76c116397e2 100644
--- a/modules/nf-core/elprep/filter/main.nf
+++ b/modules/nf-core/elprep/filter/main.nf
@@ -2,7 +2,7 @@ process ELPREP_FILTER {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::elprep=5.1.2" : null)
+    conda "bioconda::elprep=5.1.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/elprep:5.1.2--he881be0_0':
         'quay.io/biocontainers/elprep:5.1.2--he881be0_0' }"
diff --git a/modules/nf-core/elprep/merge/main.nf b/modules/nf-core/elprep/merge/main.nf
index d5ffc4973f5..3c145c7127c 100644
--- a/modules/nf-core/elprep/merge/main.nf
+++ b/modules/nf-core/elprep/merge/main.nf
@@ -2,7 +2,7 @@ process ELPREP_MERGE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::elprep=5.1.2" : null)
+    conda "bioconda::elprep=5.1.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/elprep:5.1.2--he881be0_0':
         'quay.io/biocontainers/elprep:5.1.2--he881be0_0' }"
diff --git a/modules/nf-core/elprep/split/main.nf b/modules/nf-core/elprep/split/main.nf
index 639944ef3ee..eb14a7e2ddc 100644
--- a/modules/nf-core/elprep/split/main.nf
+++ b/modules/nf-core/elprep/split/main.nf
@@ -2,7 +2,7 @@ process ELPREP_SPLIT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::elprep=5.1.2" : null)
+    conda "bioconda::elprep=5.1.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/elprep:5.1.2--he881be0_0':
         'quay.io/biocontainers/elprep:5.1.2--he881be0_0' }"
diff --git a/modules/nf-core/emboss/seqret/main.nf b/modules/nf-core/emboss/seqret/main.nf
index 0eb9514b520..ad7b67a4398 100644
--- a/modules/nf-core/emboss/seqret/main.nf
+++ b/modules/nf-core/emboss/seqret/main.nf
@@ -2,7 +2,7 @@ process EMBOSS_SEQRET {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::emboss=6.6.0" : null)
+    conda "bioconda::emboss=6.6.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/emboss:6.6.0--hf657eab_5':
         'quay.io/biocontainers/emboss:6.6.0--h440b012_4' }"
diff --git a/modules/nf-core/emmtyper/main.nf b/modules/nf-core/emmtyper/main.nf
index 955cc308587..8ada597462a 100644
--- a/modules/nf-core/emmtyper/main.nf
+++ b/modules/nf-core/emmtyper/main.nf
@@ -2,7 +2,7 @@ process EMMTYPER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::emmtyper=0.2.0" : null)
+    conda "bioconda::emmtyper=0.2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/emmtyper:0.2.0--py_0' :
         'quay.io/biocontainers/emmtyper:0.2.0--py_0' }"
diff --git a/modules/nf-core/endorspy/main.nf b/modules/nf-core/endorspy/main.nf
index 73bdd293e29..e3280968d43 100644
--- a/modules/nf-core/endorspy/main.nf
+++ b/modules/nf-core/endorspy/main.nf
@@ -2,7 +2,7 @@ process ENDORSPY {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::endorspy=0.4" : null)
+    conda "bioconda::endorspy=0.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/endorspy:0.4--hdfd78af_0':
         'quay.io/biocontainers/endorspy:0.4--hdfd78af_0' }"
diff --git a/modules/nf-core/ensemblvep/main.nf b/modules/nf-core/ensemblvep/main.nf
index a6049034e67..02132ababf6 100644
--- a/modules/nf-core/ensemblvep/main.nf
+++ b/modules/nf-core/ensemblvep/main.nf
@@ -2,7 +2,7 @@ process ENSEMBLVEP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ensembl-vep=108.2" : null)
+    conda "bioconda::ensembl-vep=108.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ensembl-vep:108.2--pl5321h4a94de4_0' :
         'quay.io/biocontainers/ensembl-vep:108.2--pl5321h4a94de4_0' }"
diff --git a/modules/nf-core/entrezdirect/esearch/main.nf b/modules/nf-core/entrezdirect/esearch/main.nf
index e89289e9819..172240846cb 100644
--- a/modules/nf-core/entrezdirect/esearch/main.nf
+++ b/modules/nf-core/entrezdirect/esearch/main.nf
@@ -2,7 +2,7 @@ process ENTREZDIRECT_ESEARCH {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::entrez-direct=16.2" : null)
+    conda "bioconda::entrez-direct=16.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/entrez-direct:16.2--he881be0_1':
         'quay.io/biocontainers/entrez-direct:16.2--he881be0_1' }"
diff --git a/modules/nf-core/entrezdirect/esummary/main.nf b/modules/nf-core/entrezdirect/esummary/main.nf
index d8b6e7b9b08..6e1e5553f3a 100644
--- a/modules/nf-core/entrezdirect/esummary/main.nf
+++ b/modules/nf-core/entrezdirect/esummary/main.nf
@@ -2,7 +2,7 @@ process ENTREZDIRECT_ESUMMARY {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::entrez-direct=16.2" : null)
+    conda "bioconda::entrez-direct=16.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/entrez-direct:16.2--he881be0_1':
         'quay.io/biocontainers/entrez-direct:16.2--he881be0_1' }"
diff --git a/modules/nf-core/entrezdirect/xtract/main.nf b/modules/nf-core/entrezdirect/xtract/main.nf
index 1b481063fcb..6a2cbdccfee 100644
--- a/modules/nf-core/entrezdirect/xtract/main.nf
+++ b/modules/nf-core/entrezdirect/xtract/main.nf
@@ -2,7 +2,7 @@ process ENTREZDIRECT_XTRACT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::entrez-direct=16.2" : null)
+    conda "bioconda::entrez-direct=16.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
     'https://depot.galaxyproject.org/singularity/entrez-direct:16.2--he881be0_1':
     'quay.io/biocontainers/entrez-direct:16.2--he881be0_1' }"
diff --git a/modules/nf-core/epang/main.nf b/modules/nf-core/epang/main.nf
index 6e0c348c6b8..4613782e860 100644
--- a/modules/nf-core/epang/main.nf
+++ b/modules/nf-core/epang/main.nf
@@ -2,7 +2,7 @@ process EPANG {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::epa-ng=0.3.8" : null)
+    conda "bioconda::epa-ng=0.3.8"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/epa-ng:0.3.8--h9a82719_1':
         'quay.io/biocontainers/epa-ng:0.3.8--h9a82719_1' }"
diff --git a/modules/nf-core/expansionhunter/main.nf b/modules/nf-core/expansionhunter/main.nf
index f60b75b48bd..5db8794acce 100644
--- a/modules/nf-core/expansionhunter/main.nf
+++ b/modules/nf-core/expansionhunter/main.nf
@@ -2,7 +2,7 @@ process EXPANSIONHUNTER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::expansionhunter=4.0.2" : null)
+    conda "bioconda::expansionhunter=4.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/expansionhunter:4.0.2--he785bd8_0' :
         'quay.io/biocontainers/expansionhunter:4.0.2--he785bd8_0' }"
diff --git a/modules/nf-core/expansionhunterdenovo/merge/main.nf b/modules/nf-core/expansionhunterdenovo/merge/main.nf
index 0a198b3e541..dff64d3b17a 100644
--- a/modules/nf-core/expansionhunterdenovo/merge/main.nf
+++ b/modules/nf-core/expansionhunterdenovo/merge/main.nf
@@ -2,7 +2,7 @@ process EXPANSIONHUNTERDENOVO_MERGE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::expansionhunterdenovo=0.9.0" : null)
+    conda "bioconda::expansionhunterdenovo=0.9.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/expansionhunterdenovo:0.9.0--hdc99072_3':
         'quay.io/biocontainers/expansionhunterdenovo:0.9.0--hdc99072_3' }"
diff --git a/modules/nf-core/expansionhunterdenovo/profile/main.nf b/modules/nf-core/expansionhunterdenovo/profile/main.nf
index 058af585ba7..77bcfe2b6c5 100644
--- a/modules/nf-core/expansionhunterdenovo/profile/main.nf
+++ b/modules/nf-core/expansionhunterdenovo/profile/main.nf
@@ -2,7 +2,7 @@ process EXPANSIONHUNTERDENOVO_PROFILE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::expansionhunterdenovo=0.9.0" : null)
+    conda "bioconda::expansionhunterdenovo=0.9.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/expansionhunterdenovo:0.9.0--hdc99072_3':
         'quay.io/biocontainers/expansionhunterdenovo:0.9.0--hdc99072_3' }"
diff --git a/modules/nf-core/falco/main.nf b/modules/nf-core/falco/main.nf
index 16881624da5..54201fecb2e 100644
--- a/modules/nf-core/falco/main.nf
+++ b/modules/nf-core/falco/main.nf
@@ -3,7 +3,7 @@ process FALCO {
     label 'process_single'
 
 
-    conda (params.enable_conda ? "bioconda::falco=1.2.1" : null)
+    conda "bioconda::falco=1.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/falco:1.2.1--h867801b_3':
         'quay.io/biocontainers/falco:1.2.1--h867801b_3' }"
diff --git a/modules/nf-core/faqcs/main.nf b/modules/nf-core/faqcs/main.nf
index 24f81a95156..4be56e940c6 100644
--- a/modules/nf-core/faqcs/main.nf
+++ b/modules/nf-core/faqcs/main.nf
@@ -2,7 +2,7 @@ process FAQCS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::faqcs=2.10" : null)
+    conda "bioconda::faqcs=2.10"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/faqcs%3A2.10--r41h9a82719_2' :
         'quay.io/biocontainers/faqcs:2.10--r41h9a82719_2' }"
diff --git a/modules/nf-core/fargene/main.nf b/modules/nf-core/fargene/main.nf
index dd82e8ce33d..909170b14d8 100644
--- a/modules/nf-core/fargene/main.nf
+++ b/modules/nf-core/fargene/main.nf
@@ -3,7 +3,7 @@ process FARGENE {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::fargene=0.1" : null)
+    conda "bioconda::fargene=0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fargene:0.1--py27h21c881e_4' :
         'quay.io/biocontainers/fargene:0.1--py27h21c881e_4' }"
diff --git a/modules/nf-core/fastani/main.nf b/modules/nf-core/fastani/main.nf
index e6b44a8296f..d0d789b93cf 100644
--- a/modules/nf-core/fastani/main.nf
+++ b/modules/nf-core/fastani/main.nf
@@ -2,7 +2,7 @@ process FASTANI {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::fastani=1.32" : null)
+    conda "bioconda::fastani=1.32"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fastani:1.32--he1c1bb9_0' :
         'quay.io/biocontainers/fastani:1.32--he1c1bb9_0' }"
diff --git a/modules/nf-core/fastawindows/main.nf b/modules/nf-core/fastawindows/main.nf
index d25573fd703..ba0ae115069 100644
--- a/modules/nf-core/fastawindows/main.nf
+++ b/modules/nf-core/fastawindows/main.nf
@@ -2,7 +2,7 @@ process FASTAWINDOWS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::fasta_windows=0.2.4" : null)
+    conda "bioconda::fasta_windows=0.2.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fasta_windows:0.2.4--hec16e2b_0':
         'quay.io/biocontainers/fasta_windows:0.2.4--hec16e2b_0' }"
diff --git a/modules/nf-core/fastk/fastk/main.nf b/modules/nf-core/fastk/fastk/main.nf
index a509d4c7bbd..52937b9c337 100644
--- a/modules/nf-core/fastk/fastk/main.nf
+++ b/modules/nf-core/fastk/fastk/main.nf
@@ -2,9 +2,6 @@ process FASTK_FASTK {
     tag "$meta.id"
     label 'process_medium'
 
-    if (params.enable_conda) {
-        error "Conda environments cannot be used when using the FastK tool. Please use docker or singularity containers."
-    }
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
     container 'ghcr.io/nbisweden/fastk_genescopefk_merquryfk:1.2'
 
diff --git a/modules/nf-core/fastk/histex/main.nf b/modules/nf-core/fastk/histex/main.nf
index 7546e858883..b25d5d3c07c 100644
--- a/modules/nf-core/fastk/histex/main.nf
+++ b/modules/nf-core/fastk/histex/main.nf
@@ -2,9 +2,6 @@ process FASTK_HISTEX {
     tag "$meta.id"
     label 'process_low'
 
-    if (params.enable_conda) {
-        error "Conda environments cannot be used when using the FastK tool. Please use docker or singularity containers."
-    }
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
     container 'ghcr.io/nbisweden/fastk_genescopefk_merquryfk:1.2'
 
diff --git a/modules/nf-core/fastk/merge/main.nf b/modules/nf-core/fastk/merge/main.nf
index e2072d7025d..802f63e7a77 100644
--- a/modules/nf-core/fastk/merge/main.nf
+++ b/modules/nf-core/fastk/merge/main.nf
@@ -2,9 +2,6 @@ process FASTK_MERGE {
     tag "$meta.id"
     label 'process_medium'
 
-    if (params.enable_conda) {
-        error "Conda environments cannot be used when using the FastK tool. Please use docker or singularity containers."
-    }
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
     container 'ghcr.io/nbisweden/fastk_genescopefk_merquryfk:1.2'
 
diff --git a/modules/nf-core/fastp/main.nf b/modules/nf-core/fastp/main.nf
index 207258ad750..e1ed9288dea 100644
--- a/modules/nf-core/fastp/main.nf
+++ b/modules/nf-core/fastp/main.nf
@@ -2,7 +2,7 @@ process FASTP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::fastp=0.23.2' : null)
+    conda "bioconda::fastp=0.23.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fastp:0.23.2--h79da9fb_0' :
         'quay.io/biocontainers/fastp:0.23.2--h79da9fb_0' }"
diff --git a/modules/nf-core/fastqc/main.nf b/modules/nf-core/fastqc/main.nf
index 47fd0e58439..9ae5838158b 100644
--- a/modules/nf-core/fastqc/main.nf
+++ b/modules/nf-core/fastqc/main.nf
@@ -2,7 +2,7 @@ process FASTQC {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::fastqc=0.11.9" : null)
+    conda "bioconda::fastqc=0.11.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fastqc:0.11.9--0' :
         'quay.io/biocontainers/fastqc:0.11.9--0' }"
diff --git a/modules/nf-core/fastqscan/main.nf b/modules/nf-core/fastqscan/main.nf
index 4cca0317e38..a2834f62e7d 100644
--- a/modules/nf-core/fastqscan/main.nf
+++ b/modules/nf-core/fastqscan/main.nf
@@ -2,7 +2,7 @@ process FASTQSCAN {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::fastq-scan=0.4.4" : null)
+    conda "bioconda::fastq-scan=0.4.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fastq-scan:0.4.4--h7d875b9_0' :
         'quay.io/biocontainers/fastq-scan:0.4.4--h7d875b9_0' }"
diff --git a/modules/nf-core/fasttree/main.nf b/modules/nf-core/fasttree/main.nf
index ce65846a6c9..958781eebb8 100644
--- a/modules/nf-core/fasttree/main.nf
+++ b/modules/nf-core/fasttree/main.nf
@@ -1,7 +1,7 @@
 process FASTTREE {
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::fasttree=2.1.10" : null)
+    conda "bioconda::fasttree=2.1.10"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fasttree:2.1.10--h516909a_4' :
         'quay.io/biocontainers/fasttree:2.1.10--h516909a_4' }"
diff --git a/modules/nf-core/fcs/fcsadaptor/main.nf b/modules/nf-core/fcs/fcsadaptor/main.nf
index 2a0afb5bb7b..b359e7f49d8 100644
--- a/modules/nf-core/fcs/fcsadaptor/main.nf
+++ b/modules/nf-core/fcs/fcsadaptor/main.nf
@@ -2,9 +2,6 @@ process FCS_FCSADAPTOR {
     tag "$meta.id"
     label 'process_low'
 
-    if (params.enable_conda) {
-        exit 1, "Conda environments cannot be used when using the FCS tool. Please use docker or singularity containers."
-    }
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/FCS/releases/0.2.3/fcs-adaptor.0.2.3.sif':
diff --git a/modules/nf-core/fcs/fcsgx/main.nf b/modules/nf-core/fcs/fcsgx/main.nf
index 8cce6ead393..a9e74354c21 100644
--- a/modules/nf-core/fcs/fcsgx/main.nf
+++ b/modules/nf-core/fcs/fcsgx/main.nf
@@ -2,10 +2,6 @@ process FCS_FCSGX {
     tag "$meta.id"
     label 'process_low'
 
-    if (params.enable_conda) {
-        exit 1, "Conda environments cannot be used when using the FCS tool. Please use docker or singularity containers."
-    }
-
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/FCS/releases/0.2.3/fcs-gx.0.2.3.sif':
         'ncbi/fcs-gx:0.2.3' }"
diff --git a/modules/nf-core/ffq/main.nf b/modules/nf-core/ffq/main.nf
index be7c56c23c6..4276c6d76fe 100644
--- a/modules/nf-core/ffq/main.nf
+++ b/modules/nf-core/ffq/main.nf
@@ -2,7 +2,7 @@ process FFQ {
     tag "${ids.size() == 1 ? ids[0] : "${ids[0]+'..'+ids[-1]}"}"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::ffq=0.2.1" : null)
+    conda "bioconda::ffq=0.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ffq:0.2.1--pyhdfd78af_0':
         'quay.io/biocontainers/ffq:0.2.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/fgbio/callduplexconsensusreads/main.nf b/modules/nf-core/fgbio/callduplexconsensusreads/main.nf
index 07fe8270665..efd60f53c58 100644
--- a/modules/nf-core/fgbio/callduplexconsensusreads/main.nf
+++ b/modules/nf-core/fgbio/callduplexconsensusreads/main.nf
@@ -2,7 +2,7 @@ process FGBIO_CALLDUPLEXCONSENSUSREADS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::fgbio=2.0.2" : null)
+    conda "bioconda::fgbio=2.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fgbio:2.0.2--hdfd78af_0' :
         'quay.io/biocontainers/fgbio:2.0.2--hdfd78af_0' }"
diff --git a/modules/nf-core/fgbio/callmolecularconsensusreads/main.nf b/modules/nf-core/fgbio/callmolecularconsensusreads/main.nf
index 88c5ab4c1a9..edbbfab294b 100644
--- a/modules/nf-core/fgbio/callmolecularconsensusreads/main.nf
+++ b/modules/nf-core/fgbio/callmolecularconsensusreads/main.nf
@@ -2,7 +2,7 @@ process FGBIO_CALLMOLECULARCONSENSUSREADS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::fgbio=2.0.2" : null)
+    conda "bioconda::fgbio=2.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fgbio:2.0.2--hdfd78af_0' :
         'quay.io/biocontainers/fgbio:2.0.2--hdfd78af_0' }"
diff --git a/modules/nf-core/fgbio/fastqtobam/main.nf b/modules/nf-core/fgbio/fastqtobam/main.nf
index a3279491cf3..ea55c07e235 100644
--- a/modules/nf-core/fgbio/fastqtobam/main.nf
+++ b/modules/nf-core/fgbio/fastqtobam/main.nf
@@ -2,7 +2,7 @@ process FGBIO_FASTQTOBAM {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::fgbio=2.0.2" : null)
+    conda "bioconda::fgbio=2.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fgbio:2.0.2--hdfd78af_0' :
         'quay.io/biocontainers/fgbio:2.0.2--hdfd78af_0' }"
diff --git a/modules/nf-core/fgbio/filterconsensusreads/main.nf b/modules/nf-core/fgbio/filterconsensusreads/main.nf
index d2301980352..629441bbe37 100644
--- a/modules/nf-core/fgbio/filterconsensusreads/main.nf
+++ b/modules/nf-core/fgbio/filterconsensusreads/main.nf
@@ -1,7 +1,7 @@
 process FGBIO_FILTERCONSENSUSREADS {
     tag "$meta.id"
     label 'process_single'
-    conda (params.enable_conda ? "bioconda::fgbio=2.0.2" : null)
+    conda "bioconda::fgbio=2.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fgbio:2.0.2--hdfd78af_0' :
         'quay.io/biocontainers/fgbio:2.0.2--hdfd78af_0' }"
diff --git a/modules/nf-core/fgbio/groupreadsbyumi/main.nf b/modules/nf-core/fgbio/groupreadsbyumi/main.nf
index 3014355c4f7..b05c4cd82a4 100644
--- a/modules/nf-core/fgbio/groupreadsbyumi/main.nf
+++ b/modules/nf-core/fgbio/groupreadsbyumi/main.nf
@@ -2,7 +2,7 @@ process FGBIO_GROUPREADSBYUMI {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::fgbio=2.0.2" : null)
+    conda "bioconda::fgbio=2.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fgbio:2.0.2--hdfd78af_0' :
         'quay.io/biocontainers/fgbio:2.0.2--hdfd78af_0' }"
diff --git a/modules/nf-core/fgbio/sortbam/main.nf b/modules/nf-core/fgbio/sortbam/main.nf
index bb718d0b8cd..cf23fc0117e 100644
--- a/modules/nf-core/fgbio/sortbam/main.nf
+++ b/modules/nf-core/fgbio/sortbam/main.nf
@@ -2,7 +2,7 @@ process FGBIO_SORTBAM {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::fgbio=2.0.2" : null)
+    conda "bioconda::fgbio=2.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fgbio:2.0.2--hdfd78af_0' :
         'quay.io/biocontainers/fgbio:2.0.2--hdfd78af_0' }"
diff --git a/modules/nf-core/fgbio/zipperbams/main.nf b/modules/nf-core/fgbio/zipperbams/main.nf
index 1389c8aab5f..503d511fb1c 100644
--- a/modules/nf-core/fgbio/zipperbams/main.nf
+++ b/modules/nf-core/fgbio/zipperbams/main.nf
@@ -2,7 +2,7 @@ process FGBIO_ZIPPERBAMS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::fgbio=2.0.2" : null)
+    conda "bioconda::fgbio=2.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fgbio:2.0.2--hdfd78af_0' :
         'quay.io/biocontainers/fgbio:2.0.2--hdfd78af_0' }"
diff --git a/modules/nf-core/filtlong/main.nf b/modules/nf-core/filtlong/main.nf
index afaa9382878..e920fefafcd 100644
--- a/modules/nf-core/filtlong/main.nf
+++ b/modules/nf-core/filtlong/main.nf
@@ -2,7 +2,7 @@ process FILTLONG {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::filtlong=0.2.1" : null)
+    conda "bioconda::filtlong=0.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/filtlong:0.2.1--h9a82719_0' :
         'quay.io/biocontainers/filtlong:0.2.1--h9a82719_0' }"
diff --git a/modules/nf-core/flash/main.nf b/modules/nf-core/flash/main.nf
index bb6f249970b..bf7671f6ef3 100644
--- a/modules/nf-core/flash/main.nf
+++ b/modules/nf-core/flash/main.nf
@@ -2,6 +2,7 @@ process FLASH {
     tag "$meta.id"
     label 'process_medium'
 
+    conda "bioconda::flash=1.2.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/flash:1.2.11--hed695b0_5' :
         'quay.io/biocontainers/flash:1.2.11--hed695b0_5' }"
diff --git a/modules/nf-core/flye/main.nf b/modules/nf-core/flye/main.nf
index 61d88fcb9f9..d17f8ab8356 100644
--- a/modules/nf-core/flye/main.nf
+++ b/modules/nf-core/flye/main.nf
@@ -2,7 +2,7 @@ process FLYE {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::flye=2.9" : null)
+    conda "bioconda::flye=2.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/flye:2.9--py39h6935b12_1' :
         'quay.io/biocontainers/flye:2.9--py39h6935b12_1' }"
diff --git a/modules/nf-core/fq/lint/main.nf b/modules/nf-core/fq/lint/main.nf
index b36fcadc86a..961d66139e1 100644
--- a/modules/nf-core/fq/lint/main.nf
+++ b/modules/nf-core/fq/lint/main.nf
@@ -2,7 +2,7 @@ process FQ_LINT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::fq=0.9.1" : null)
+    conda "bioconda::fq=0.9.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/fq:0.9.1--h9ee0642_0':
         'quay.io/biocontainers/fq:0.9.1--h9ee0642_0' }"
diff --git a/modules/nf-core/freebayes/main.nf b/modules/nf-core/freebayes/main.nf
index dfc65a3bc32..35ced9f1ad9 100644
--- a/modules/nf-core/freebayes/main.nf
+++ b/modules/nf-core/freebayes/main.nf
@@ -2,7 +2,7 @@ process FREEBAYES {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::freebayes=1.3.6" : null)
+    conda "bioconda::freebayes=1.3.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/freebayes:1.3.6--hbfe0e7f_2' :
         'quay.io/biocontainers/freebayes:1.3.6--hbfe0e7f_2' }"
diff --git a/modules/nf-core/gamma/gamma/main.nf b/modules/nf-core/gamma/gamma/main.nf
index 5c580df591f..62fd9f2bb73 100644
--- a/modules/nf-core/gamma/gamma/main.nf
+++ b/modules/nf-core/gamma/gamma/main.nf
@@ -4,7 +4,7 @@ process GAMMA_GAMMA {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::gamma=2.1" : null)
+    conda "bioconda::gamma=2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gamma%3A2.1--hdfd78af_0':
         'quay.io/biocontainers/gamma:2.1--hdfd78af_0' }"
diff --git a/modules/nf-core/gangstr/main.nf b/modules/nf-core/gangstr/main.nf
index 6e4eec2b7b8..491b46dc048 100644
--- a/modules/nf-core/gangstr/main.nf
+++ b/modules/nf-core/gangstr/main.nf
@@ -2,7 +2,7 @@ process GANGSTR {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gangstr=2.5.0" : null)
+    conda "bioconda::gangstr=2.5.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gangstr:2.5.0--h48cf4b7_4':
         'quay.io/biocontainers/gangstr:2.5.0--h48cf4b7_4' }"
diff --git a/modules/nf-core/gappa/examineassign/main.nf b/modules/nf-core/gappa/examineassign/main.nf
index 9cee804eedd..130210aa8ac 100644
--- a/modules/nf-core/gappa/examineassign/main.nf
+++ b/modules/nf-core/gappa/examineassign/main.nf
@@ -2,7 +2,7 @@ process GAPPA_EXAMINEASSIGN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gappa=0.8.0" : null)
+    conda "bioconda::gappa=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gappa:0.8.0--h9a82719_0':
         'quay.io/biocontainers/gappa:0.8.0--h9a82719_0' }"
diff --git a/modules/nf-core/gappa/examinegraft/main.nf b/modules/nf-core/gappa/examinegraft/main.nf
index 24e334183c8..b1121f3aaf9 100644
--- a/modules/nf-core/gappa/examinegraft/main.nf
+++ b/modules/nf-core/gappa/examinegraft/main.nf
@@ -2,7 +2,7 @@ process GAPPA_EXAMINEGRAFT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gappa=0.8.0" : null)
+    conda "bioconda::gappa=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gappa:0.8.0--h9a82719_0':
         'quay.io/biocontainers/gappa:0.8.0--h9a82719_0' }"
diff --git a/modules/nf-core/gappa/examineheattree/main.nf b/modules/nf-core/gappa/examineheattree/main.nf
index 9b9b56e1e01..6898992f39b 100644
--- a/modules/nf-core/gappa/examineheattree/main.nf
+++ b/modules/nf-core/gappa/examineheattree/main.nf
@@ -2,7 +2,7 @@ process GAPPA_EXAMINEHEATTREE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gappa=0.8.0" : null)
+    conda "bioconda::gappa=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gappa:0.8.0--h9a82719_0':
         'quay.io/biocontainers/gappa:0.8.0--h9a82719_0' }"
diff --git a/modules/nf-core/gatk/indelrealigner/main.nf b/modules/nf-core/gatk/indelrealigner/main.nf
index bfe444e26b8..8fdf18faa2a 100644
--- a/modules/nf-core/gatk/indelrealigner/main.nf
+++ b/modules/nf-core/gatk/indelrealigner/main.nf
@@ -2,7 +2,7 @@ process GATK_INDELREALIGNER {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gatk=3.5" : null)
+    conda "bioconda::gatk=3.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk:3.5--hdfd78af_11':
         'quay.io/biocontainers/gatk:3.5--hdfd78af_11' }"
diff --git a/modules/nf-core/gatk/realignertargetcreator/main.nf b/modules/nf-core/gatk/realignertargetcreator/main.nf
index ba6a25921f2..88d8f1f5ca1 100644
--- a/modules/nf-core/gatk/realignertargetcreator/main.nf
+++ b/modules/nf-core/gatk/realignertargetcreator/main.nf
@@ -2,7 +2,7 @@ process GATK_REALIGNERTARGETCREATOR {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk=3.5" : null)
+    conda "bioconda::gatk=3.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk:3.5--hdfd78af_11':
         'quay.io/biocontainers/gatk:3.5--hdfd78af_11' }"
diff --git a/modules/nf-core/gatk/unifiedgenotyper/main.nf b/modules/nf-core/gatk/unifiedgenotyper/main.nf
index e88ac7c5ae7..d9efe8da4c0 100644
--- a/modules/nf-core/gatk/unifiedgenotyper/main.nf
+++ b/modules/nf-core/gatk/unifiedgenotyper/main.nf
@@ -2,7 +2,7 @@ process GATK_UNIFIEDGENOTYPER {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk=3.5" : null)
+    conda "bioconda::gatk=3.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk:3.5--hdfd78af_11':
         'quay.io/biocontainers/gatk:3.5--hdfd78af_11' }"
diff --git a/modules/nf-core/gatk4/annotateintervals/main.nf b/modules/nf-core/gatk4/annotateintervals/main.nf
index c8dd9551670..e05d50bece3 100644
--- a/modules/nf-core/gatk4/annotateintervals/main.nf
+++ b/modules/nf-core/gatk4/annotateintervals/main.nf
@@ -2,7 +2,7 @@ process GATK4_ANNOTATEINTERVALS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/applybqsr/main.nf b/modules/nf-core/gatk4/applybqsr/main.nf
index d3e251a2822..9dc6ac68ad0 100644
--- a/modules/nf-core/gatk4/applybqsr/main.nf
+++ b/modules/nf-core/gatk4/applybqsr/main.nf
@@ -2,7 +2,7 @@ process GATK4_APPLYBQSR {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/applybqsrspark/main.nf b/modules/nf-core/gatk4/applybqsrspark/main.nf
index 9b47dc916f5..0790d2abb4d 100644
--- a/modules/nf-core/gatk4/applybqsrspark/main.nf
+++ b/modules/nf-core/gatk4/applybqsrspark/main.nf
@@ -2,7 +2,7 @@ process GATK4_APPLYBQSR_SPARK {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0 conda-forge::openjdk=8.0.312" : null)
+    conda "bioconda::gatk4=4.3.0.0 conda-forge::openjdk=8.0.312"
     container 'broadinstitute/gatk:4.3.0.0'
 
     input:
diff --git a/modules/nf-core/gatk4/applyvqsr/main.nf b/modules/nf-core/gatk4/applyvqsr/main.nf
index 6d18463d8d6..f9bb2bf7203 100644
--- a/modules/nf-core/gatk4/applyvqsr/main.nf
+++ b/modules/nf-core/gatk4/applyvqsr/main.nf
@@ -2,7 +2,7 @@ process GATK4_APPLYVQSR {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/baserecalibrator/main.nf b/modules/nf-core/gatk4/baserecalibrator/main.nf
index 222dfae9da8..b668a1fc905 100644
--- a/modules/nf-core/gatk4/baserecalibrator/main.nf
+++ b/modules/nf-core/gatk4/baserecalibrator/main.nf
@@ -2,7 +2,7 @@ process GATK4_BASERECALIBRATOR {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/baserecalibratorspark/main.nf b/modules/nf-core/gatk4/baserecalibratorspark/main.nf
index d9237215150..4fdf1b27f36 100644
--- a/modules/nf-core/gatk4/baserecalibratorspark/main.nf
+++ b/modules/nf-core/gatk4/baserecalibratorspark/main.nf
@@ -2,7 +2,7 @@ process GATK4_BASERECALIBRATOR_SPARK {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0 conda-forge::openjdk=8.0.312" : null)
+    conda "bioconda::gatk4=4.3.0.0 conda-forge::openjdk=8.0.312"
     container 'broadinstitute/gatk:4.3.0.0'
 
     input:
diff --git a/modules/nf-core/gatk4/bedtointervallist/main.nf b/modules/nf-core/gatk4/bedtointervallist/main.nf
index 64a3fa9a116..41fab0034eb 100644
--- a/modules/nf-core/gatk4/bedtointervallist/main.nf
+++ b/modules/nf-core/gatk4/bedtointervallist/main.nf
@@ -2,7 +2,7 @@ process GATK4_BEDTOINTERVALLIST {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/calculatecontamination/main.nf b/modules/nf-core/gatk4/calculatecontamination/main.nf
index a270c037734..c2a6a3d171b 100644
--- a/modules/nf-core/gatk4/calculatecontamination/main.nf
+++ b/modules/nf-core/gatk4/calculatecontamination/main.nf
@@ -2,7 +2,7 @@ process GATK4_CALCULATECONTAMINATION {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/calibratedragstrmodel/main.nf b/modules/nf-core/gatk4/calibratedragstrmodel/main.nf
index a94503cf32b..bd03d2b7eb3 100644
--- a/modules/nf-core/gatk4/calibratedragstrmodel/main.nf
+++ b/modules/nf-core/gatk4/calibratedragstrmodel/main.nf
@@ -2,7 +2,7 @@ process GATK4_CALIBRATEDRAGSTRMODEL {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/cnnscorevariants/main.nf b/modules/nf-core/gatk4/cnnscorevariants/main.nf
index 319ab438879..795aadf4f85 100644
--- a/modules/nf-core/gatk4/cnnscorevariants/main.nf
+++ b/modules/nf-core/gatk4/cnnscorevariants/main.nf
@@ -3,9 +3,6 @@ process GATK4_CNNSCOREVARIANTS {
     label 'process_low'
 
     //Conda is not supported at the moment: https://github.com/broadinstitute/gatk/issues/7811
-    if (params.enable_conda) {
-        exit 1, "Conda environments cannot be used for GATK4/CNNScoreVariants at the moment. Please use docker or singularity containers."
-    }
     container "broadinstitute/gatk:4.3.0.0" //Biocontainers is missing a package
 
     input:
diff --git a/modules/nf-core/gatk4/collectreadcounts/main.nf b/modules/nf-core/gatk4/collectreadcounts/main.nf
index 0f80f7f1469..c7cc5de350a 100644
--- a/modules/nf-core/gatk4/collectreadcounts/main.nf
+++ b/modules/nf-core/gatk4/collectreadcounts/main.nf
@@ -2,7 +2,7 @@ process GATK4_COLLECTREADCOUNTS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/collectsvevidence/main.nf b/modules/nf-core/gatk4/collectsvevidence/main.nf
index 7c914a28021..235f019b4ac 100644
--- a/modules/nf-core/gatk4/collectsvevidence/main.nf
+++ b/modules/nf-core/gatk4/collectsvevidence/main.nf
@@ -2,7 +2,7 @@ process GATK4_COLLECTSVEVIDENCE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/combinegvcfs/main.nf b/modules/nf-core/gatk4/combinegvcfs/main.nf
index f477d8955f7..035c171b008 100644
--- a/modules/nf-core/gatk4/combinegvcfs/main.nf
+++ b/modules/nf-core/gatk4/combinegvcfs/main.nf
@@ -2,7 +2,7 @@ process GATK4_COMBINEGVCFS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/composestrtablefile/main.nf b/modules/nf-core/gatk4/composestrtablefile/main.nf
index 6ec29ec851d..7a8e917c5d8 100644
--- a/modules/nf-core/gatk4/composestrtablefile/main.nf
+++ b/modules/nf-core/gatk4/composestrtablefile/main.nf
@@ -2,7 +2,7 @@ process GATK4_COMPOSESTRTABLEFILE {
     tag "$fasta"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/condensedepthevidence/main.nf b/modules/nf-core/gatk4/condensedepthevidence/main.nf
index 3d25363b536..3d469ca77df 100644
--- a/modules/nf-core/gatk4/condensedepthevidence/main.nf
+++ b/modules/nf-core/gatk4/condensedepthevidence/main.nf
@@ -2,7 +2,7 @@ process GATK4_CONDENSEDEPTHEVIDENCE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/createsequencedictionary/main.nf b/modules/nf-core/gatk4/createsequencedictionary/main.nf
index de679002f64..bc324adacad 100644
--- a/modules/nf-core/gatk4/createsequencedictionary/main.nf
+++ b/modules/nf-core/gatk4/createsequencedictionary/main.nf
@@ -2,7 +2,7 @@ process GATK4_CREATESEQUENCEDICTIONARY {
     tag "$fasta"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/createsomaticpanelofnormals/main.nf b/modules/nf-core/gatk4/createsomaticpanelofnormals/main.nf
index bce053c7ece..a14fda4543b 100644
--- a/modules/nf-core/gatk4/createsomaticpanelofnormals/main.nf
+++ b/modules/nf-core/gatk4/createsomaticpanelofnormals/main.nf
@@ -2,7 +2,7 @@ process GATK4_CREATESOMATICPANELOFNORMALS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/determinegermlinecontigploidy/main.nf b/modules/nf-core/gatk4/determinegermlinecontigploidy/main.nf
index 524018bba62..c4cbf4faf91 100644
--- a/modules/nf-core/gatk4/determinegermlinecontigploidy/main.nf
+++ b/modules/nf-core/gatk4/determinegermlinecontigploidy/main.nf
@@ -2,9 +2,6 @@ process GATK4_DETERMINEGERMLINECONTIGPLOIDY {
     tag "$meta.id"
     label 'process_single'
 
-    if(params.enable_conda){
-        error "Conda environments cannot be used for GATK4/DetermineGermlineContigPloidy at the moment. Please use docker or singularity containers."
-    }
     container "broadinstitute/gatk:4.3.0.0"
 
     input:
diff --git a/modules/nf-core/gatk4/estimatelibrarycomplexity/main.nf b/modules/nf-core/gatk4/estimatelibrarycomplexity/main.nf
index 9d56bb3e578..123313835a6 100644
--- a/modules/nf-core/gatk4/estimatelibrarycomplexity/main.nf
+++ b/modules/nf-core/gatk4/estimatelibrarycomplexity/main.nf
@@ -2,7 +2,7 @@ process GATK4_ESTIMATELIBRARYCOMPLEXITY {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/fastqtosam/main.nf b/modules/nf-core/gatk4/fastqtosam/main.nf
index eaed5769611..e5fabd4e8c1 100644
--- a/modules/nf-core/gatk4/fastqtosam/main.nf
+++ b/modules/nf-core/gatk4/fastqtosam/main.nf
@@ -2,7 +2,7 @@ process GATK4_FASTQTOSAM {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/filterintervals/main.nf b/modules/nf-core/gatk4/filterintervals/main.nf
index 6b5f80b9af7..119f9a8d31d 100644
--- a/modules/nf-core/gatk4/filterintervals/main.nf
+++ b/modules/nf-core/gatk4/filterintervals/main.nf
@@ -2,7 +2,7 @@ process GATK4_FILTERINTERVALS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/filtermutectcalls/main.nf b/modules/nf-core/gatk4/filtermutectcalls/main.nf
index 130c83b6543..f3585bb306f 100644
--- a/modules/nf-core/gatk4/filtermutectcalls/main.nf
+++ b/modules/nf-core/gatk4/filtermutectcalls/main.nf
@@ -2,7 +2,7 @@ process GATK4_FILTERMUTECTCALLS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/filtervarianttranches/main.nf b/modules/nf-core/gatk4/filtervarianttranches/main.nf
index 5a2117e980d..ed6af4e664e 100644
--- a/modules/nf-core/gatk4/filtervarianttranches/main.nf
+++ b/modules/nf-core/gatk4/filtervarianttranches/main.nf
@@ -2,7 +2,7 @@ process GATK4_FILTERVARIANTTRANCHES {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/gatherbqsrreports/main.nf b/modules/nf-core/gatk4/gatherbqsrreports/main.nf
index f560d476704..1de9754eb03 100644
--- a/modules/nf-core/gatk4/gatherbqsrreports/main.nf
+++ b/modules/nf-core/gatk4/gatherbqsrreports/main.nf
@@ -2,7 +2,7 @@ process GATK4_GATHERBQSRREPORTS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/gatherpileupsummaries/main.nf b/modules/nf-core/gatk4/gatherpileupsummaries/main.nf
index 05e7f13d533..ff669de9df4 100644
--- a/modules/nf-core/gatk4/gatherpileupsummaries/main.nf
+++ b/modules/nf-core/gatk4/gatherpileupsummaries/main.nf
@@ -2,7 +2,7 @@ process GATK4_GATHERPILEUPSUMMARIES {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/genomicsdbimport/main.nf b/modules/nf-core/gatk4/genomicsdbimport/main.nf
index a3367ab4d55..8adb128d8b6 100644
--- a/modules/nf-core/gatk4/genomicsdbimport/main.nf
+++ b/modules/nf-core/gatk4/genomicsdbimport/main.nf
@@ -2,7 +2,7 @@ process GATK4_GENOMICSDBIMPORT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/genotypegvcfs/main.nf b/modules/nf-core/gatk4/genotypegvcfs/main.nf
index 9fcd3d5e5fb..74fe434cf3a 100644
--- a/modules/nf-core/gatk4/genotypegvcfs/main.nf
+++ b/modules/nf-core/gatk4/genotypegvcfs/main.nf
@@ -2,7 +2,7 @@ process GATK4_GENOTYPEGVCFS {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/getpileupsummaries/main.nf b/modules/nf-core/gatk4/getpileupsummaries/main.nf
index 99b2595ca93..a9130f17aac 100644
--- a/modules/nf-core/gatk4/getpileupsummaries/main.nf
+++ b/modules/nf-core/gatk4/getpileupsummaries/main.nf
@@ -2,7 +2,7 @@ process GATK4_GETPILEUPSUMMARIES {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/haplotypecaller/main.nf b/modules/nf-core/gatk4/haplotypecaller/main.nf
index c295223597b..c011376a3e3 100644
--- a/modules/nf-core/gatk4/haplotypecaller/main.nf
+++ b/modules/nf-core/gatk4/haplotypecaller/main.nf
@@ -2,7 +2,7 @@ process GATK4_HAPLOTYPECALLER {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/indexfeaturefile/main.nf b/modules/nf-core/gatk4/indexfeaturefile/main.nf
index 32f40cd1db9..9793c90c6cd 100644
--- a/modules/nf-core/gatk4/indexfeaturefile/main.nf
+++ b/modules/nf-core/gatk4/indexfeaturefile/main.nf
@@ -2,7 +2,7 @@ process GATK4_INDEXFEATUREFILE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/intervallisttobed/main.nf b/modules/nf-core/gatk4/intervallisttobed/main.nf
index 901b9301c12..3a2d596ac9d 100644
--- a/modules/nf-core/gatk4/intervallisttobed/main.nf
+++ b/modules/nf-core/gatk4/intervallisttobed/main.nf
@@ -2,7 +2,7 @@ process GATK4_INTERVALLISTTOBED {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/intervallisttools/main.nf b/modules/nf-core/gatk4/intervallisttools/main.nf
index 09e2b25724a..84da7bf79a1 100644
--- a/modules/nf-core/gatk4/intervallisttools/main.nf
+++ b/modules/nf-core/gatk4/intervallisttools/main.nf
@@ -2,7 +2,7 @@ process GATK4_INTERVALLISTTOOLS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/learnreadorientationmodel/main.nf b/modules/nf-core/gatk4/learnreadorientationmodel/main.nf
index 3f206296f5f..f93753b91ed 100644
--- a/modules/nf-core/gatk4/learnreadorientationmodel/main.nf
+++ b/modules/nf-core/gatk4/learnreadorientationmodel/main.nf
@@ -2,7 +2,7 @@ process GATK4_LEARNREADORIENTATIONMODEL {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/leftalignandtrimvariants/main.nf b/modules/nf-core/gatk4/leftalignandtrimvariants/main.nf
index 572ffd3341f..c5479e65a14 100644
--- a/modules/nf-core/gatk4/leftalignandtrimvariants/main.nf
+++ b/modules/nf-core/gatk4/leftalignandtrimvariants/main.nf
@@ -2,7 +2,7 @@ process GATK4_LEFTALIGNANDTRIMVARIANTS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/markduplicates/main.nf b/modules/nf-core/gatk4/markduplicates/main.nf
index 02f78bda2dc..af9a7cf25c8 100644
--- a/modules/nf-core/gatk4/markduplicates/main.nf
+++ b/modules/nf-core/gatk4/markduplicates/main.nf
@@ -2,7 +2,7 @@ process GATK4_MARKDUPLICATES {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/markduplicatesspark/main.nf b/modules/nf-core/gatk4/markduplicatesspark/main.nf
index a632c65f782..bb30057c76d 100644
--- a/modules/nf-core/gatk4/markduplicatesspark/main.nf
+++ b/modules/nf-core/gatk4/markduplicatesspark/main.nf
@@ -2,7 +2,7 @@ process GATK4_MARKDUPLICATES_SPARK {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0 conda-forge::openjdk=8.0.312" : null)
+    conda "bioconda::gatk4=4.3.0.0 conda-forge::openjdk=8.0.312"
     container 'broadinstitute/gatk:4.3.0.0'
 
     input:
diff --git a/modules/nf-core/gatk4/mergebamalignment/main.nf b/modules/nf-core/gatk4/mergebamalignment/main.nf
index 55f9b6a5833..6bbab76ccdd 100644
--- a/modules/nf-core/gatk4/mergebamalignment/main.nf
+++ b/modules/nf-core/gatk4/mergebamalignment/main.nf
@@ -2,7 +2,7 @@ process GATK4_MERGEBAMALIGNMENT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/mergemutectstats/main.nf b/modules/nf-core/gatk4/mergemutectstats/main.nf
index c666d3c60e0..28bb61332e1 100644
--- a/modules/nf-core/gatk4/mergemutectstats/main.nf
+++ b/modules/nf-core/gatk4/mergemutectstats/main.nf
@@ -2,7 +2,7 @@ process GATK4_MERGEMUTECTSTATS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/mergevcfs/main.nf b/modules/nf-core/gatk4/mergevcfs/main.nf
index 08fb3969e3b..d418468ffed 100644
--- a/modules/nf-core/gatk4/mergevcfs/main.nf
+++ b/modules/nf-core/gatk4/mergevcfs/main.nf
@@ -2,7 +2,7 @@ process GATK4_MERGEVCFS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/mutect2/main.nf b/modules/nf-core/gatk4/mutect2/main.nf
index 693340d9eb6..c2085266cad 100644
--- a/modules/nf-core/gatk4/mutect2/main.nf
+++ b/modules/nf-core/gatk4/mutect2/main.nf
@@ -2,7 +2,7 @@ process GATK4_MUTECT2 {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/preprocessintervals/main.nf b/modules/nf-core/gatk4/preprocessintervals/main.nf
index 4176434e81d..e89132e8606 100644
--- a/modules/nf-core/gatk4/preprocessintervals/main.nf
+++ b/modules/nf-core/gatk4/preprocessintervals/main.nf
@@ -2,7 +2,7 @@ process GATK4_PREPROCESSINTERVALS {
     tag "$fasta"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/printreads/main.nf b/modules/nf-core/gatk4/printreads/main.nf
index c7562d9ea98..26a70681559 100644
--- a/modules/nf-core/gatk4/printreads/main.nf
+++ b/modules/nf-core/gatk4/printreads/main.nf
@@ -2,7 +2,7 @@ process GATK4_PRINTREADS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/printsvevidence/main.nf b/modules/nf-core/gatk4/printsvevidence/main.nf
index bdcf8ac1fe9..942f4ee7508 100644
--- a/modules/nf-core/gatk4/printsvevidence/main.nf
+++ b/modules/nf-core/gatk4/printsvevidence/main.nf
@@ -2,7 +2,7 @@ process GATK4_PRINTSVEVIDENCE {
     tag "${meta.id}"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/reblockgvcf/main.nf b/modules/nf-core/gatk4/reblockgvcf/main.nf
index d2c875f30ce..db4fd8fbd7b 100644
--- a/modules/nf-core/gatk4/reblockgvcf/main.nf
+++ b/modules/nf-core/gatk4/reblockgvcf/main.nf
@@ -2,7 +2,7 @@ process GATK4_REBLOCKGVCF {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/revertsam/main.nf b/modules/nf-core/gatk4/revertsam/main.nf
index 1c52aeff7e3..9fe041c4add 100644
--- a/modules/nf-core/gatk4/revertsam/main.nf
+++ b/modules/nf-core/gatk4/revertsam/main.nf
@@ -2,7 +2,7 @@ process GATK4_REVERTSAM {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/samtofastq/main.nf b/modules/nf-core/gatk4/samtofastq/main.nf
index b7a6bcb0246..9ba5ea8d391 100644
--- a/modules/nf-core/gatk4/samtofastq/main.nf
+++ b/modules/nf-core/gatk4/samtofastq/main.nf
@@ -2,7 +2,7 @@ process GATK4_SAMTOFASTQ {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/selectvariants/main.nf b/modules/nf-core/gatk4/selectvariants/main.nf
index d05bff6f7b8..0c4fcceb530 100644
--- a/modules/nf-core/gatk4/selectvariants/main.nf
+++ b/modules/nf-core/gatk4/selectvariants/main.nf
@@ -2,7 +2,7 @@ process GATK4_SELECTVARIANTS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/shiftfasta/main.nf b/modules/nf-core/gatk4/shiftfasta/main.nf
index f8d69c27f33..c81d95a5d7f 100644
--- a/modules/nf-core/gatk4/shiftfasta/main.nf
+++ b/modules/nf-core/gatk4/shiftfasta/main.nf
@@ -2,7 +2,7 @@ process GATK4_SHIFTFASTA {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/sitedepthtobaf/main.nf b/modules/nf-core/gatk4/sitedepthtobaf/main.nf
index 6f77f3ecef4..986836a6c27 100644
--- a/modules/nf-core/gatk4/sitedepthtobaf/main.nf
+++ b/modules/nf-core/gatk4/sitedepthtobaf/main.nf
@@ -2,7 +2,7 @@ process GATK4_SITEDEPTHTOBAF {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/splitcram/main.nf b/modules/nf-core/gatk4/splitcram/main.nf
index d6cee1ffd47..c175d077860 100644
--- a/modules/nf-core/gatk4/splitcram/main.nf
+++ b/modules/nf-core/gatk4/splitcram/main.nf
@@ -2,7 +2,7 @@ process GATK4_SPLITCRAM {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/splitintervals/main.nf b/modules/nf-core/gatk4/splitintervals/main.nf
index c642b210c92..1640806b0cf 100644
--- a/modules/nf-core/gatk4/splitintervals/main.nf
+++ b/modules/nf-core/gatk4/splitintervals/main.nf
@@ -2,7 +2,7 @@ process GATK4_SPLITINTERVALS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/splitncigarreads/main.nf b/modules/nf-core/gatk4/splitncigarreads/main.nf
index 5ac88c4338f..77092a29e1f 100644
--- a/modules/nf-core/gatk4/splitncigarreads/main.nf
+++ b/modules/nf-core/gatk4/splitncigarreads/main.nf
@@ -2,7 +2,7 @@ process GATK4_SPLITNCIGARREADS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/svannotate/main.nf b/modules/nf-core/gatk4/svannotate/main.nf
index ebc66999933..aae600abb2d 100644
--- a/modules/nf-core/gatk4/svannotate/main.nf
+++ b/modules/nf-core/gatk4/svannotate/main.nf
@@ -2,7 +2,7 @@ process GATK4_SVANNOTATE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/svcluster/main.nf b/modules/nf-core/gatk4/svcluster/main.nf
index 52a9668ba07..eeb3b0d1bbd 100644
--- a/modules/nf-core/gatk4/svcluster/main.nf
+++ b/modules/nf-core/gatk4/svcluster/main.nf
@@ -2,7 +2,7 @@ process GATK4_SVCLUSTER {
     tag "${meta.id}"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/variantfiltration/main.nf b/modules/nf-core/gatk4/variantfiltration/main.nf
index 9365bfa82e6..e2837a912bc 100644
--- a/modules/nf-core/gatk4/variantfiltration/main.nf
+++ b/modules/nf-core/gatk4/variantfiltration/main.nf
@@ -2,7 +2,7 @@ process GATK4_VARIANTFILTRATION {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gatk4/variantrecalibrator/main.nf b/modules/nf-core/gatk4/variantrecalibrator/main.nf
index dd317a9bbd2..d0d92fc270b 100644
--- a/modules/nf-core/gatk4/variantrecalibrator/main.nf
+++ b/modules/nf-core/gatk4/variantrecalibrator/main.nf
@@ -2,7 +2,7 @@ process GATK4_VARIANTRECALIBRATOR {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gatk4=4.3.0.0" : null)
+    conda "bioconda::gatk4=4.3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gatk4:4.3.0.0--py36hdfd78af_0':
         'quay.io/biocontainers/gatk4:4.3.0.0--py36hdfd78af_0' }"
diff --git a/modules/nf-core/gawk/main.nf b/modules/nf-core/gawk/main.nf
index 28bd01d73b5..032c19dd3a4 100644
--- a/modules/nf-core/gawk/main.nf
+++ b/modules/nf-core/gawk/main.nf
@@ -2,7 +2,7 @@ process GAWK {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "anaconda::gawk=5.1.0" : null)
+    conda "anaconda::gawk=5.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gawk:5.1.0' :
         'quay.io/biocontainers/gawk:5.1.0' }"
diff --git a/modules/nf-core/gecco/run/main.nf b/modules/nf-core/gecco/run/main.nf
index 7bce527a0fc..7405a461036 100644
--- a/modules/nf-core/gecco/run/main.nf
+++ b/modules/nf-core/gecco/run/main.nf
@@ -2,7 +2,7 @@ process GECCO_RUN {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gecco=0.9.2" : null)
+    conda "bioconda::gecco=0.9.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gecco:0.9.2--pyhdfd78af_0':
         'quay.io/biocontainers/gecco:0.9.2--pyhdfd78af_0' }"
diff --git a/modules/nf-core/genescopefk/main.nf b/modules/nf-core/genescopefk/main.nf
index 3215258e4d7..5084bf7800a 100644
--- a/modules/nf-core/genescopefk/main.nf
+++ b/modules/nf-core/genescopefk/main.nf
@@ -2,9 +2,6 @@ process GENESCOPEFK {
     tag "$meta.id"
     label 'process_low'
 
-    if (params.enable_conda) {
-        error "Conda environments cannot be used when using the GeneScope tool. Please use docker or singularity containers."
-    }
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
     container 'ghcr.io/nbisweden/fastk_genescopefk_merquryfk:1.2'
 
diff --git a/modules/nf-core/genmap/index/main.nf b/modules/nf-core/genmap/index/main.nf
index 0e30dc316f1..1301daee99d 100644
--- a/modules/nf-core/genmap/index/main.nf
+++ b/modules/nf-core/genmap/index/main.nf
@@ -2,7 +2,7 @@ process GENMAP_INDEX {
     tag "$fasta"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::genmap=1.3.0" : null)
+    conda "bioconda::genmap=1.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/genmap:1.3.0--h1b792b2_1' :
         'quay.io/biocontainers/genmap:1.3.0--h1b792b2_1' }"
diff --git a/modules/nf-core/genmap/mappability/main.nf b/modules/nf-core/genmap/mappability/main.nf
index 36c54c1c397..6491b75300d 100644
--- a/modules/nf-core/genmap/mappability/main.nf
+++ b/modules/nf-core/genmap/mappability/main.nf
@@ -2,7 +2,7 @@ process GENMAP_MAPPABILITY {
     tag "$index"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::genmap=1.3.0" : null)
+    conda "bioconda::genmap=1.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/genmap:1.3.0--h1b792b2_1' :
         'quay.io/biocontainers/genmap:1.3.0--h1b792b2_1' }"
diff --git a/modules/nf-core/genmod/annotate/main.nf b/modules/nf-core/genmod/annotate/main.nf
index 9ba2f6121ad..9d9350dce0a 100644
--- a/modules/nf-core/genmod/annotate/main.nf
+++ b/modules/nf-core/genmod/annotate/main.nf
@@ -2,7 +2,7 @@ process GENMOD_ANNOTATE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::genmod=3.7.4" : null)
+    conda "bioconda::genmod=3.7.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/genmod:3.7.4--pyh5e36f6f_0':
         'quay.io/biocontainers/genmod:3.7.4--pyh5e36f6f_0' }"
diff --git a/modules/nf-core/genmod/compound/main.nf b/modules/nf-core/genmod/compound/main.nf
index e7d43fea264..925f76bb343 100644
--- a/modules/nf-core/genmod/compound/main.nf
+++ b/modules/nf-core/genmod/compound/main.nf
@@ -2,7 +2,7 @@ process GENMOD_COMPOUND {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::genmod=3.7.4" : null)
+    conda "bioconda::genmod=3.7.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/genmod:3.7.4--pyh5e36f6f_0':
         'quay.io/biocontainers/genmod:3.7.4--pyh5e36f6f_0' }"
diff --git a/modules/nf-core/genmod/models/main.nf b/modules/nf-core/genmod/models/main.nf
index 8d73d745bef..cd1b747e214 100644
--- a/modules/nf-core/genmod/models/main.nf
+++ b/modules/nf-core/genmod/models/main.nf
@@ -2,7 +2,7 @@ process GENMOD_MODELS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::genmod=3.7.4 conda-forge::python=3.4.5" : null)
+    conda "bioconda::genmod=3.7.4 conda-forge::python=3.4.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/genmod:3.7.4--pyh5e36f6f_0':
         'quay.io/biocontainers/genmod:3.7.4--pyh5e36f6f_0' }"
diff --git a/modules/nf-core/genmod/score/main.nf b/modules/nf-core/genmod/score/main.nf
index e0a0277c427..d3c9957c7e5 100644
--- a/modules/nf-core/genmod/score/main.nf
+++ b/modules/nf-core/genmod/score/main.nf
@@ -2,7 +2,7 @@ process GENMOD_SCORE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::genmod=3.7.4" : null)
+    conda "bioconda::genmod=3.7.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/genmod:3.7.4--pyh5e36f6f_0':
         'quay.io/biocontainers/genmod:3.7.4--pyh5e36f6f_0' }"
diff --git a/modules/nf-core/genomescope2/main.nf b/modules/nf-core/genomescope2/main.nf
index 2ddf9e430dd..5776cb4de8d 100644
--- a/modules/nf-core/genomescope2/main.nf
+++ b/modules/nf-core/genomescope2/main.nf
@@ -2,7 +2,7 @@ process GENOMESCOPE2 {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::genomescope2=2.0" : null)
+    conda "bioconda::genomescope2=2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/genomescope2:2.0--py310r41hdfd78af_5':
         'quay.io/biocontainers/genomescope2:2.0--py310r41hdfd78af_5' }"
diff --git a/modules/nf-core/genotyphi/parse/main.nf b/modules/nf-core/genotyphi/parse/main.nf
index 83da02bed11..f0870b5873a 100644
--- a/modules/nf-core/genotyphi/parse/main.nf
+++ b/modules/nf-core/genotyphi/parse/main.nf
@@ -2,7 +2,7 @@ process GENOTYPHI_PARSE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::genotyphi=1.9.1" : null)
+    conda "bioconda::genotyphi=1.9.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/genotyphi:1.9.1--hdfd78af_1':
         'quay.io/biocontainers/genotyphi:1.9.1--hdfd78af_1' }"
diff --git a/modules/nf-core/genrich/main.nf b/modules/nf-core/genrich/main.nf
index d276c410780..f914e6acb97 100644
--- a/modules/nf-core/genrich/main.nf
+++ b/modules/nf-core/genrich/main.nf
@@ -2,7 +2,7 @@ process GENRICH {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::genrich=0.6.1" : null)
+    conda "bioconda::genrich=0.6.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/genrich:0.6.1--h5bf99c6_1' :
         'quay.io/biocontainers/genrich:0.6.1--h5bf99c6_1' }"
diff --git a/modules/nf-core/gfaffix/main.nf b/modules/nf-core/gfaffix/main.nf
index 3ae5ad66265..472926f6c52 100644
--- a/modules/nf-core/gfaffix/main.nf
+++ b/modules/nf-core/gfaffix/main.nf
@@ -2,7 +2,7 @@ process GFAFFIX {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? 'bioconda::gfaffix=0.1.4' : null)
+    conda "bioconda::gfaffix=0.1.4"
 
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gfaffix:0.1.4--hec16e2b_0' :
diff --git a/modules/nf-core/gfastats/main.nf b/modules/nf-core/gfastats/main.nf
index 7f7b7cdc530..c56c07edf4f 100644
--- a/modules/nf-core/gfastats/main.nf
+++ b/modules/nf-core/gfastats/main.nf
@@ -2,7 +2,7 @@ process GFASTATS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gfastats=1.3.5" : null)
+    conda "bioconda::gfastats=1.3.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gfastats:1.3.5--hd03093a_0':
         'quay.io/biocontainers/gfastats:1.3.5--hd03093a_0' }"
diff --git a/modules/nf-core/gffread/main.nf b/modules/nf-core/gffread/main.nf
index 7c575c97ff2..b1a8996fe06 100644
--- a/modules/nf-core/gffread/main.nf
+++ b/modules/nf-core/gffread/main.nf
@@ -2,7 +2,7 @@ process GFFREAD {
     tag "$gff"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gffread=0.12.1" : null)
+    conda "bioconda::gffread=0.12.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gffread:0.12.1--h8b12597_0' :
         'quay.io/biocontainers/gffread:0.12.1--h8b12597_0' }"
diff --git a/modules/nf-core/glimpse/chunk/main.nf b/modules/nf-core/glimpse/chunk/main.nf
index b22370ca2bb..8f3b64dbce4 100644
--- a/modules/nf-core/glimpse/chunk/main.nf
+++ b/modules/nf-core/glimpse/chunk/main.nf
@@ -2,7 +2,7 @@ process GLIMPSE_CHUNK {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::glimpse-bio=1.1.1" : null)
+    conda "bioconda::glimpse-bio=1.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/glimpse-bio:1.1.1--h2ce4488_2':
         'quay.io/biocontainers/glimpse-bio:1.1.1--hce55b13_1' }"
diff --git a/modules/nf-core/glnexus/main.nf b/modules/nf-core/glnexus/main.nf
index a26ab4cee5b..479da5a7b6a 100644
--- a/modules/nf-core/glnexus/main.nf
+++ b/modules/nf-core/glnexus/main.nf
@@ -2,7 +2,7 @@ process GLNEXUS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::glnexus=1.4.1" : null)
+    conda "bioconda::glnexus=1.4.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/glnexus:1.4.1--h40d77a6_0' :
         'quay.io/biocontainers/glnexus:1.4.1--h40d77a6_0' }"
diff --git a/modules/nf-core/goat/taxonsearch/main.nf b/modules/nf-core/goat/taxonsearch/main.nf
index 3f8e4411875..e50626ced06 100644
--- a/modules/nf-core/goat/taxonsearch/main.nf
+++ b/modules/nf-core/goat/taxonsearch/main.nf
@@ -2,7 +2,7 @@ process GOAT_TAXONSEARCH {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::goat=0.2.0" : null)
+    conda "bioconda::goat=0.2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/goat:0.2.0--h92d785c_0':
         'quay.io/biocontainers/goat:0.2.0--h92d785c_0' }"
diff --git a/modules/nf-core/graphmap2/align/main.nf b/modules/nf-core/graphmap2/align/main.nf
index 8834cc0ab66..becb65bf639 100644
--- a/modules/nf-core/graphmap2/align/main.nf
+++ b/modules/nf-core/graphmap2/align/main.nf
@@ -3,7 +3,7 @@ process GRAPHMAP2_ALIGN {
     label 'process_medium'
     tag "$meta.id"
 
-    conda (params.enable_conda ? "bioconda::graphmap=0.6.3" : null)
+    conda "bioconda::graphmap=0.6.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/graphmap:0.6.3--he513fc3_0' :
         'quay.io/biocontainers/graphmap:0.6.3--he513fc3_0' }"
diff --git a/modules/nf-core/graphmap2/index/main.nf b/modules/nf-core/graphmap2/index/main.nf
index ef240b6c05a..f641d68ee57 100644
--- a/modules/nf-core/graphmap2/index/main.nf
+++ b/modules/nf-core/graphmap2/index/main.nf
@@ -1,7 +1,7 @@
 process GRAPHMAP2_INDEX {
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::graphmap=0.6.3" : null)
+    conda "bioconda::graphmap=0.6.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/graphmap:0.6.3--he513fc3_0' :
         'quay.io/biocontainers/graphmap:0.6.3--he513fc3_0' }"
diff --git a/modules/nf-core/gsea/gsea/main.nf b/modules/nf-core/gsea/gsea/main.nf
index 0422f5b8437..3597658aa22 100644
--- a/modules/nf-core/gsea/gsea/main.nf
+++ b/modules/nf-core/gsea/gsea/main.nf
@@ -2,7 +2,7 @@ process GSEA_GSEA {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gsea=4.3.2" : null)
+    conda "bioconda::gsea=4.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gsea:4.3.2--hdfd78af_0':
         'quay.io/biocontainers/gsea:4.3.2--hdfd78af_0' }"
diff --git a/modules/nf-core/gstama/collapse/main.nf b/modules/nf-core/gstama/collapse/main.nf
index 36d8a311e02..8e11c279c1a 100644
--- a/modules/nf-core/gstama/collapse/main.nf
+++ b/modules/nf-core/gstama/collapse/main.nf
@@ -2,7 +2,7 @@ process GSTAMA_COLLAPSE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gs-tama=1.0.3" : null)
+    conda "bioconda::gs-tama=1.0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gs-tama:1.0.3--hdfd78af_0' :
         'quay.io/biocontainers/gs-tama:1.0.3--hdfd78af_0' }"
diff --git a/modules/nf-core/gstama/merge/main.nf b/modules/nf-core/gstama/merge/main.nf
index 9723d8f9ad1..98bce44b281 100644
--- a/modules/nf-core/gstama/merge/main.nf
+++ b/modules/nf-core/gstama/merge/main.nf
@@ -2,7 +2,7 @@ process GSTAMA_MERGE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gs-tama=1.0.2" : null)
+    conda "bioconda::gs-tama=1.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gs-tama:1.0.2--hdfd78af_0' :
         'quay.io/biocontainers/gs-tama:1.0.2--hdfd78af_0' }"
diff --git a/modules/nf-core/gstama/polyacleanup/main.nf b/modules/nf-core/gstama/polyacleanup/main.nf
index 214e5f936d1..6aee302891d 100644
--- a/modules/nf-core/gstama/polyacleanup/main.nf
+++ b/modules/nf-core/gstama/polyacleanup/main.nf
@@ -2,7 +2,7 @@ process GSTAMA_POLYACLEANUP {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gs-tama=1.0.3" : null)
+    conda "bioconda::gs-tama=1.0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gs-tama:1.0.3--hdfd78af_0':
         'quay.io/biocontainers/gs-tama:1.0.3--hdfd78af_0' }"
diff --git a/modules/nf-core/gtdbtk/classifywf/main.nf b/modules/nf-core/gtdbtk/classifywf/main.nf
index 02ea970a489..69233abc927 100644
--- a/modules/nf-core/gtdbtk/classifywf/main.nf
+++ b/modules/nf-core/gtdbtk/classifywf/main.nf
@@ -3,7 +3,7 @@ process GTDBTK_CLASSIFYWF {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::gtdbtk=1.5.0" : null)
+    conda "bioconda::gtdbtk=1.5.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gtdbtk:1.5.0--pyhdfd78af_0' :
         'quay.io/biocontainers/gtdbtk:1.5.0--pyhdfd78af_0' }"
diff --git a/modules/nf-core/gubbins/main.nf b/modules/nf-core/gubbins/main.nf
index 17a271d8f76..ed4e225f22b 100644
--- a/modules/nf-core/gubbins/main.nf
+++ b/modules/nf-core/gubbins/main.nf
@@ -1,7 +1,7 @@
 process GUBBINS {
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::gubbins=3.0.0' : null)
+    conda "bioconda::gubbins=3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gubbins:3.0.0--py39h5bf99c6_0' :
         'quay.io/biocontainers/gubbins:3.0.0--py39h5bf99c6_0' }"
diff --git a/modules/nf-core/gunc/downloaddb/main.nf b/modules/nf-core/gunc/downloaddb/main.nf
index 04d4ce9f99c..1e77a4c6761 100644
--- a/modules/nf-core/gunc/downloaddb/main.nf
+++ b/modules/nf-core/gunc/downloaddb/main.nf
@@ -2,7 +2,7 @@ process GUNC_DOWNLOADDB {
     tag "$db_name"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::gunc=1.0.5" : null)
+    conda "bioconda::gunc=1.0.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gunc:1.0.5--pyhdfd78af_0' :
         'quay.io/biocontainers/gunc:1.0.5--pyhdfd78af_0' }"
diff --git a/modules/nf-core/gunc/run/main.nf b/modules/nf-core/gunc/run/main.nf
index ce9bd7c67c2..07511c518dd 100644
--- a/modules/nf-core/gunc/run/main.nf
+++ b/modules/nf-core/gunc/run/main.nf
@@ -2,7 +2,7 @@ process GUNC_RUN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::gunc=1.0.5" : null)
+    conda "bioconda::gunc=1.0.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gunc:1.0.5--pyhdfd78af_0' :
         'quay.io/biocontainers/gunc:1.0.5--pyhdfd78af_0' }"
diff --git a/modules/nf-core/gunzip/main.nf b/modules/nf-core/gunzip/main.nf
index fa6ba26a578..d906034c38a 100644
--- a/modules/nf-core/gunzip/main.nf
+++ b/modules/nf-core/gunzip/main.nf
@@ -2,7 +2,7 @@ process GUNZIP {
     tag "$archive"
     label 'process_single'
 
-    conda (params.enable_conda ? "conda-forge::sed=4.7" : null)
+    conda "conda-forge::sed=4.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ubuntu:20.04' :
         'ubuntu:20.04' }"
diff --git a/modules/nf-core/gvcftools/extractvariants/main.nf b/modules/nf-core/gvcftools/extractvariants/main.nf
index 85794fbe832..292c271ca8a 100644
--- a/modules/nf-core/gvcftools/extractvariants/main.nf
+++ b/modules/nf-core/gvcftools/extractvariants/main.nf
@@ -2,7 +2,7 @@ process GVCFTOOLS_EXTRACTVARIANTS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::gvcftools=0.17.0" : null)
+    conda "bioconda::gvcftools=0.17.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/gvcftools:0.17.0--he941832_3':
         'quay.io/biocontainers/gvcftools:0.17.0--he941832_3' }"
diff --git a/modules/nf-core/hamronization/abricate/main.nf b/modules/nf-core/hamronization/abricate/main.nf
index 32dacda06cb..7a526ab9c71 100644
--- a/modules/nf-core/hamronization/abricate/main.nf
+++ b/modules/nf-core/hamronization/abricate/main.nf
@@ -2,7 +2,7 @@ process HAMRONIZATION_ABRICATE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::hamronization=1.1.1" : null)
+    conda "bioconda::hamronization=1.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hamronization:1.1.1--pyhdfd78af_0':
         'quay.io/biocontainers/hamronization:1.1.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/hamronization/amrfinderplus/main.nf b/modules/nf-core/hamronization/amrfinderplus/main.nf
index 815defcca7e..92a3f5fc6da 100644
--- a/modules/nf-core/hamronization/amrfinderplus/main.nf
+++ b/modules/nf-core/hamronization/amrfinderplus/main.nf
@@ -2,7 +2,7 @@ process HAMRONIZATION_AMRFINDERPLUS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::hamronization=1.1.1" : null)
+    conda "bioconda::hamronization=1.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hamronization:1.1.1--pyhdfd78af_0':
         'quay.io/biocontainers/hamronization:1.1.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/hamronization/deeparg/main.nf b/modules/nf-core/hamronization/deeparg/main.nf
index 467dd7cef58..8a9a1d7e8e4 100644
--- a/modules/nf-core/hamronization/deeparg/main.nf
+++ b/modules/nf-core/hamronization/deeparg/main.nf
@@ -2,7 +2,7 @@ process HAMRONIZATION_DEEPARG {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::hamronization=1.1.1" : null)
+    conda "bioconda::hamronization=1.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hamronization:1.1.1--pyhdfd78af_0':
         'quay.io/biocontainers/hamronization:1.1.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/hamronization/fargene/main.nf b/modules/nf-core/hamronization/fargene/main.nf
index b7d5dc64540..0e0034294c8 100644
--- a/modules/nf-core/hamronization/fargene/main.nf
+++ b/modules/nf-core/hamronization/fargene/main.nf
@@ -2,7 +2,7 @@ process HAMRONIZATION_FARGENE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::hamronization=1.1.1" : null)
+    conda "bioconda::hamronization=1.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hamronization:1.1.1--pyhdfd78af_0':
         'quay.io/biocontainers/hamronization:1.1.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/hamronization/rgi/main.nf b/modules/nf-core/hamronization/rgi/main.nf
index c26ee7a890d..5da71230896 100644
--- a/modules/nf-core/hamronization/rgi/main.nf
+++ b/modules/nf-core/hamronization/rgi/main.nf
@@ -2,7 +2,7 @@ process HAMRONIZATION_RGI {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::hamronization=1.1.1" : null)
+    conda "bioconda::hamronization=1.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hamronization:1.1.1--pyhdfd78af_0':
         'quay.io/biocontainers/hamronization:1.1.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/hamronization/summarize/main.nf b/modules/nf-core/hamronization/summarize/main.nf
index 2b58c30d456..7660e16073a 100644
--- a/modules/nf-core/hamronization/summarize/main.nf
+++ b/modules/nf-core/hamronization/summarize/main.nf
@@ -1,7 +1,7 @@
 process HAMRONIZATION_SUMMARIZE {
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::hamronization=1.1.1" : null)
+    conda "bioconda::hamronization=1.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hamronization:1.1.1--pyhdfd78af_0':
         'quay.io/biocontainers/hamronization:1.1.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/hapibd/main.nf b/modules/nf-core/hapibd/main.nf
index f4b17a16963..c4e3adee162 100644
--- a/modules/nf-core/hapibd/main.nf
+++ b/modules/nf-core/hapibd/main.nf
@@ -2,7 +2,7 @@ process HAPIBD {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::hap-ibd=1.0.rev20May22.818" : null)
+    conda "bioconda::hap-ibd=1.0.rev20May22.818"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hap-ibd:1.0.rev20May22.818--hdfd78af_0':
         'quay.io/biocontainers/hap-ibd:1.0.rev20May22.818--hdfd78af_0' }"
diff --git a/modules/nf-core/haplocheck/main.nf b/modules/nf-core/haplocheck/main.nf
index 6e8541f62b4..0a593bd0a79 100644
--- a/modules/nf-core/haplocheck/main.nf
+++ b/modules/nf-core/haplocheck/main.nf
@@ -2,7 +2,7 @@ process HAPLOCHECK {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::haplocheck=1.3.3" : null)
+    conda "bioconda::haplocheck=1.3.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/haplocheck:1.3.3--h4a94de4_0':
         'quay.io/biocontainers/haplocheck:1.3.3--h4a94de4_0' }"
diff --git a/modules/nf-core/haplogrep2/classify/main.nf b/modules/nf-core/haplogrep2/classify/main.nf
index c49cb957344..8931ca786cd 100644
--- a/modules/nf-core/haplogrep2/classify/main.nf
+++ b/modules/nf-core/haplogrep2/classify/main.nf
@@ -2,7 +2,7 @@ process HAPLOGREP2_CLASSIFY {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::haplogrep=2.4.0" : null)
+    conda "bioconda::haplogrep=2.4.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/haplogrep:2.4.0--hdfd78af_0':
         'quay.io/biocontainers/haplogrep:2.4.0--hdfd78af_0' }"
diff --git a/modules/nf-core/happy/happy/main.nf b/modules/nf-core/happy/happy/main.nf
index c972a7417c6..c0dab68c31c 100644
--- a/modules/nf-core/happy/happy/main.nf
+++ b/modules/nf-core/happy/happy/main.nf
@@ -3,7 +3,7 @@ process HAPPY_HAPPY {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::hap.py=0.3.14" : null)
+    conda "bioconda::hap.py=0.3.14"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hap.py:0.3.14--py27h5c5a3ab_0':
         'quay.io/biocontainers/hap.py:0.3.14--py27h5c5a3ab_0' }"
diff --git a/modules/nf-core/happy/prepy/main.nf b/modules/nf-core/happy/prepy/main.nf
index e2e42c67614..b92fc2e80bf 100644
--- a/modules/nf-core/happy/prepy/main.nf
+++ b/modules/nf-core/happy/prepy/main.nf
@@ -3,7 +3,7 @@ process HAPPY_PREPY {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::hap.py=0.3.14" : null)
+    conda "bioconda::hap.py=0.3.14"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hap.py:0.3.14--py27h5c5a3ab_0':
         'quay.io/biocontainers/hap.py:0.3.14--py27h5c5a3ab_0' }"
diff --git a/modules/nf-core/hicap/main.nf b/modules/nf-core/hicap/main.nf
index 51fe0b83db7..daf554d8759 100644
--- a/modules/nf-core/hicap/main.nf
+++ b/modules/nf-core/hicap/main.nf
@@ -2,7 +2,7 @@ process HICAP {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::hicap=1.0.3" : null)
+    conda "bioconda::hicap=1.0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hicap:1.0.3--py_0' :
         'quay.io/biocontainers/hicap:1.0.3--py_0' }"
diff --git a/modules/nf-core/hifiasm/main.nf b/modules/nf-core/hifiasm/main.nf
index ea7c4976d2a..9016ea07c13 100644
--- a/modules/nf-core/hifiasm/main.nf
+++ b/modules/nf-core/hifiasm/main.nf
@@ -2,7 +2,7 @@ process HIFIASM {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::hifiasm=0.15.4" : null)
+    conda "bioconda::hifiasm=0.15.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hifiasm:0.15.4--h2e03b76_0' :
         'quay.io/biocontainers/hifiasm:0.15.4--h2e03b76_0' }"
diff --git a/modules/nf-core/hisat2/align/main.nf b/modules/nf-core/hisat2/align/main.nf
index 697177295ae..eefb5819e12 100644
--- a/modules/nf-core/hisat2/align/main.nf
+++ b/modules/nf-core/hisat2/align/main.nf
@@ -3,7 +3,7 @@ process HISAT2_ALIGN {
     label 'process_high'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::hisat2=2.2.1 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::hisat2=2.2.1 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-a97e90b3b802d1da3d6958e0867610c718cb5eb1:2cdf6bf1e92acbeb9b2834b1c58754167173a410-0' :
         'quay.io/biocontainers/mulled-v2-a97e90b3b802d1da3d6958e0867610c718cb5eb1:2cdf6bf1e92acbeb9b2834b1c58754167173a410-0' }"
diff --git a/modules/nf-core/hisat2/build/main.nf b/modules/nf-core/hisat2/build/main.nf
index fee4064ce84..e0a7f6525ec 100644
--- a/modules/nf-core/hisat2/build/main.nf
+++ b/modules/nf-core/hisat2/build/main.nf
@@ -4,7 +4,7 @@ process HISAT2_BUILD {
     label 'process_high_memory'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? 'bioconda::hisat2=2.2.1' : null)
+    conda "bioconda::hisat2=2.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hisat2:2.2.1--h1b792b2_3' :
         'quay.io/biocontainers/hisat2:2.2.1--h1b792b2_3' }"
diff --git a/modules/nf-core/hisat2/extractsplicesites/main.nf b/modules/nf-core/hisat2/extractsplicesites/main.nf
index 1423f25cd29..db6cbe6a264 100644
--- a/modules/nf-core/hisat2/extractsplicesites/main.nf
+++ b/modules/nf-core/hisat2/extractsplicesites/main.nf
@@ -3,7 +3,7 @@ process HISAT2_EXTRACTSPLICESITES {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? 'bioconda::hisat2=2.2.1' : null)
+    conda "bioconda::hisat2=2.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hisat2:2.2.1--h1b792b2_3' :
         'quay.io/biocontainers/hisat2:2.2.1--h1b792b2_3' }"
diff --git a/modules/nf-core/hmmcopy/gccounter/main.nf b/modules/nf-core/hmmcopy/gccounter/main.nf
index 4a2f9fedbeb..ec299b47098 100644
--- a/modules/nf-core/hmmcopy/gccounter/main.nf
+++ b/modules/nf-core/hmmcopy/gccounter/main.nf
@@ -2,7 +2,7 @@ process HMMCOPY_GCCOUNTER {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::hmmcopy=0.1.1" : null)
+    conda "bioconda::hmmcopy=0.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hmmcopy:0.1.1--h2e03b76_7' :
         'quay.io/biocontainers/hmmcopy:0.1.1--h2e03b76_7' }"
diff --git a/modules/nf-core/hmmcopy/generatemap/main.nf b/modules/nf-core/hmmcopy/generatemap/main.nf
index 9c9431c72eb..c5eac0c8bb7 100644
--- a/modules/nf-core/hmmcopy/generatemap/main.nf
+++ b/modules/nf-core/hmmcopy/generatemap/main.nf
@@ -3,7 +3,7 @@ process HMMCOPY_GENERATEMAP {
     label 'process_long'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::hmmcopy=0.1.1" : null)
+    conda "bioconda::hmmcopy=0.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hmmcopy:0.1.1--h2e03b76_7':
         'quay.io/biocontainers/hmmcopy:0.1.1--h2e03b76_7' }"
diff --git a/modules/nf-core/hmmcopy/mapcounter/main.nf b/modules/nf-core/hmmcopy/mapcounter/main.nf
index 196d036bf43..ac59a1475ea 100644
--- a/modules/nf-core/hmmcopy/mapcounter/main.nf
+++ b/modules/nf-core/hmmcopy/mapcounter/main.nf
@@ -2,7 +2,7 @@ process HMMCOPY_MAPCOUNTER {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::hmmcopy=0.1.1" : null)
+    conda "bioconda::hmmcopy=0.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hmmcopy:0.1.1--h2e03b76_7':
         'quay.io/biocontainers/hmmcopy:0.1.1--h2e03b76_7' }"
diff --git a/modules/nf-core/hmmcopy/readcounter/main.nf b/modules/nf-core/hmmcopy/readcounter/main.nf
index 95a02a6752d..e751dfc3c04 100644
--- a/modules/nf-core/hmmcopy/readcounter/main.nf
+++ b/modules/nf-core/hmmcopy/readcounter/main.nf
@@ -3,7 +3,7 @@ process HMMCOPY_READCOUNTER {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::hmmcopy=0.1.1" : null)
+    conda "bioconda::hmmcopy=0.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hmmcopy:0.1.1--h2e03b76_7' :
         'quay.io/biocontainers/hmmcopy:0.1.1--h2e03b76_7' }"
diff --git a/modules/nf-core/hmmer/eslalimask/main.nf b/modules/nf-core/hmmer/eslalimask/main.nf
index fb6cbe8aaec..3777643067a 100644
--- a/modules/nf-core/hmmer/eslalimask/main.nf
+++ b/modules/nf-core/hmmer/eslalimask/main.nf
@@ -2,7 +2,7 @@ process HMMER_ESLALIMASK {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::hmmer=3.3.2" : null)
+    conda "bioconda::hmmer=3.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hmmer:3.3.2--h1b792b2_1':
         'quay.io/biocontainers/hmmer:3.3.2--h1b792b2_1' }"
diff --git a/modules/nf-core/hmmer/eslreformat/main.nf b/modules/nf-core/hmmer/eslreformat/main.nf
index 464a51d0df3..6eaae0992e3 100644
--- a/modules/nf-core/hmmer/eslreformat/main.nf
+++ b/modules/nf-core/hmmer/eslreformat/main.nf
@@ -2,7 +2,7 @@ process HMMER_ESLREFORMAT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::hmmer=3.3.2" : null)
+    conda "bioconda::hmmer=3.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hmmer:3.3.2--h1b792b2_1':
         'quay.io/biocontainers/hmmer:3.3.2--h1b792b2_1' }"
diff --git a/modules/nf-core/hmmer/hmmalign/main.nf b/modules/nf-core/hmmer/hmmalign/main.nf
index afa59a26044..63f2bbd1f05 100644
--- a/modules/nf-core/hmmer/hmmalign/main.nf
+++ b/modules/nf-core/hmmer/hmmalign/main.nf
@@ -2,7 +2,7 @@ process HMMER_HMMALIGN {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::hmmer=3.3.2" : null)
+    conda "bioconda::hmmer=3.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hmmer:3.3.2--h1b792b2_1' :
         'quay.io/biocontainers/hmmer:3.3.2--h1b792b2_1' }"
diff --git a/modules/nf-core/hmmer/hmmbuild/main.nf b/modules/nf-core/hmmer/hmmbuild/main.nf
index 802dd7ebffd..91924b99ab2 100644
--- a/modules/nf-core/hmmer/hmmbuild/main.nf
+++ b/modules/nf-core/hmmer/hmmbuild/main.nf
@@ -2,7 +2,7 @@ process HMMER_HMMBUILD {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::hmmer=3.3.2" : null)
+    conda "bioconda::hmmer=3.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hmmer:3.3.2--h87f3376_2':
         'quay.io/biocontainers/hmmer:3.3.2--h1b792b2_1' }"
diff --git a/modules/nf-core/hmmer/hmmsearch/main.nf b/modules/nf-core/hmmer/hmmsearch/main.nf
index 3a2d15b7f7a..d7759c1d65c 100644
--- a/modules/nf-core/hmmer/hmmsearch/main.nf
+++ b/modules/nf-core/hmmer/hmmsearch/main.nf
@@ -2,7 +2,7 @@ process HMMER_HMMSEARCH {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::hmmer=3.3.2" : null)
+    conda "bioconda::hmmer=3.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hmmer:3.3.2--h1b792b2_1' :
         'quay.io/biocontainers/hmmer:3.3.2--h1b792b2_1' }"
diff --git a/modules/nf-core/hmtnote/main.nf b/modules/nf-core/hmtnote/main.nf
index a17969248b8..415a44b0c27 100644
--- a/modules/nf-core/hmtnote/main.nf
+++ b/modules/nf-core/hmtnote/main.nf
@@ -2,7 +2,7 @@ process HMTNOTE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::hmtnote=0.7.2" : null)
+    conda "bioconda::hmtnote=0.7.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hmtnote:0.7.2--pyhdfd78af_0':
         'quay.io/biocontainers/hmtnote:0.7.2--pyhdfd78af_0' }"
diff --git a/modules/nf-core/homer/annotatepeaks/main.nf b/modules/nf-core/homer/annotatepeaks/main.nf
index 9056a5ab50e..865ad81cd27 100644
--- a/modules/nf-core/homer/annotatepeaks/main.nf
+++ b/modules/nf-core/homer/annotatepeaks/main.nf
@@ -3,7 +3,7 @@ process HOMER_ANNOTATEPEAKS {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::homer=4.11" : null)
+    conda "bioconda::homer=4.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/homer:4.11--pl526hc9558a2_3' :
         'quay.io/biocontainers/homer:4.11--pl526hc9558a2_3' }"
diff --git a/modules/nf-core/homer/findpeaks/main.nf b/modules/nf-core/homer/findpeaks/main.nf
index 29a08c69009..1515e449a82 100644
--- a/modules/nf-core/homer/findpeaks/main.nf
+++ b/modules/nf-core/homer/findpeaks/main.nf
@@ -3,7 +3,7 @@ process HOMER_FINDPEAKS {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::homer=4.11=pl526hc9558a2_3" : null)
+    conda "bioconda::homer=4.11=pl526hc9558a2_3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/homer:4.11--pl526hc9558a2_3' :
         'quay.io/biocontainers/homer:4.11--pl526hc9558a2_3' }"
diff --git a/modules/nf-core/homer/maketagdirectory/main.nf b/modules/nf-core/homer/maketagdirectory/main.nf
index d679b0cf1e2..227ed159fe9 100644
--- a/modules/nf-core/homer/maketagdirectory/main.nf
+++ b/modules/nf-core/homer/maketagdirectory/main.nf
@@ -4,7 +4,7 @@ process HOMER_MAKETAGDIRECTORY {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::homer=4.11 bioconda::samtools=1.11 conda-forge::r-base=4.0.2 bioconda::bioconductor-deseq2=1.30.0 bioconda::bioconductor-edger=3.32.0 anaconda::perl=5.26.2" : null)
+    conda "bioconda::homer=4.11 bioconda::samtools=1.11 conda-forge::r-base=4.0.2 bioconda::bioconductor-deseq2=1.30.0 bioconda::bioconductor-edger=3.32.0 anaconda::perl=5.26.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-29293b111ffe5b4c1d1e14c711264aaed6b97b4a:594338b771cacf1623bd27772b5e12825f8835f2-0' :
         'quay.io/biocontainers/mulled-v2-29293b111ffe5b4c1d1e14c711264aaed6b97b4a:594338b771cacf1623bd27772b5e12825f8835f2-0' }"
diff --git a/modules/nf-core/homer/makeucscfile/main.nf b/modules/nf-core/homer/makeucscfile/main.nf
index 7ef58b3d6b8..e084d6abbc2 100644
--- a/modules/nf-core/homer/makeucscfile/main.nf
+++ b/modules/nf-core/homer/makeucscfile/main.nf
@@ -3,7 +3,7 @@ process HOMER_MAKEUCSCFILE {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::homer=4.11=pl526hc9558a2_3" : null)
+    conda "bioconda::homer=4.11=pl526hc9558a2_3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/homer:4.11--pl526hc9558a2_3' :
         'quay.io/biocontainers/homer:4.11--pl526hc9558a2_3' }"
diff --git a/modules/nf-core/homer/pos2bed/main.nf b/modules/nf-core/homer/pos2bed/main.nf
index f0a2ee2165b..8f9b5991e2c 100644
--- a/modules/nf-core/homer/pos2bed/main.nf
+++ b/modules/nf-core/homer/pos2bed/main.nf
@@ -3,7 +3,7 @@ process HOMER_POS2BED {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::homer=4.11" : null)
+    conda "bioconda::homer=4.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/homer:4.11--pl526hc9558a2_3' :
         'quay.io/biocontainers/homer:4.11--pl526hc9558a2_3' }"
diff --git a/modules/nf-core/hpsuissero/main.nf b/modules/nf-core/hpsuissero/main.nf
index 39210430b35..90617261201 100644
--- a/modules/nf-core/hpsuissero/main.nf
+++ b/modules/nf-core/hpsuissero/main.nf
@@ -3,7 +3,7 @@ process HPSUISSERO {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::hpsuissero=1.0.1" : null)
+    conda "bioconda::hpsuissero=1.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hpsuissero%3A1.0.1--hdfd78af_0':
         'quay.io/biocontainers/hpsuissero:1.0.1--hdfd78af_0' }"
diff --git a/modules/nf-core/ichorcna/createpon/main.nf b/modules/nf-core/ichorcna/createpon/main.nf
index 976eb3d8e98..6c64f4efae8 100644
--- a/modules/nf-core/ichorcna/createpon/main.nf
+++ b/modules/nf-core/ichorcna/createpon/main.nf
@@ -2,7 +2,7 @@ process ICHORCNA_CREATEPON {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::r-ichorcna=0.3.2" : null)
+    conda "bioconda::r-ichorcna=0.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/r-ichorcna:0.3.2--r41hdfd78af_0' :
         'quay.io/biocontainers/r-ichorcna:0.3.2--r41hdfd78af_0' }"
diff --git a/modules/nf-core/ichorcna/run/main.nf b/modules/nf-core/ichorcna/run/main.nf
index fb52166d0e3..08dad44695c 100644
--- a/modules/nf-core/ichorcna/run/main.nf
+++ b/modules/nf-core/ichorcna/run/main.nf
@@ -3,7 +3,7 @@ process ICHORCNA_RUN {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::r-ichorcna=0.3.2" : null)
+    conda "bioconda::r-ichorcna=0.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/r-ichorcna:0.3.2--r41hdfd78af_0' :
         'quay.io/biocontainers/r-ichorcna:0.3.2--r41hdfd78af_0' }"
diff --git a/modules/nf-core/idr/main.nf b/modules/nf-core/idr/main.nf
index d18ef2ebc51..c44aec1d53d 100644
--- a/modules/nf-core/idr/main.nf
+++ b/modules/nf-core/idr/main.nf
@@ -2,7 +2,7 @@ process IDR {
     tag "$prefix"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::idr=2.0.4.2" : null)
+    conda "bioconda::idr=2.0.4.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/idr:2.0.4.2--py39hcbe4a3b_5' :
         'quay.io/biocontainers/idr:2.0.4.2--py39hcbe4a3b_5' }"
diff --git a/modules/nf-core/imputeme/vcftoprs/main.nf b/modules/nf-core/imputeme/vcftoprs/main.nf
index 8ce3f73d03b..7996cbb56a6 100644
--- a/modules/nf-core/imputeme/vcftoprs/main.nf
+++ b/modules/nf-core/imputeme/vcftoprs/main.nf
@@ -2,7 +2,6 @@ process IMPUTEME_VCFTOPRS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "YOUR-TOOL-HERE" : null)
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://containers.biocontainers.pro/s3/SingImgsRepo/imputeme/vv1.0.7_cv1/imputeme_vv1.0.7_cv1.img' :
         'biocontainers/imputeme:vv1.0.7_cv1' }"
diff --git a/modules/nf-core/instrain/profile/main.nf b/modules/nf-core/instrain/profile/main.nf
index 74e4b3ab207..f823a570f8f 100644
--- a/modules/nf-core/instrain/profile/main.nf
+++ b/modules/nf-core/instrain/profile/main.nf
@@ -2,7 +2,7 @@ process INSTRAIN_PROFILE {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::instrain=1.6.1" : null)
+    conda "bioconda::instrain=1.6.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/instrain:1.6.1--pyhdfd78af_0':
         'quay.io/biocontainers/instrain:1.6.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/iqtree/main.nf b/modules/nf-core/iqtree/main.nf
index db394bd2897..75874ed57b5 100644
--- a/modules/nf-core/iqtree/main.nf
+++ b/modules/nf-core/iqtree/main.nf
@@ -2,7 +2,7 @@ process IQTREE {
     tag "$alignment"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::iqtree=2.1.4_beta' : null)
+    conda "bioconda::iqtree=2.1.4_beta"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/iqtree:2.1.4_beta--hdcc8f71_0' :
         'quay.io/biocontainers/iqtree:2.1.4_beta--hdcc8f71_0' }"
diff --git a/modules/nf-core/ismapper/main.nf b/modules/nf-core/ismapper/main.nf
index a2c79115849..ec0956a269b 100644
--- a/modules/nf-core/ismapper/main.nf
+++ b/modules/nf-core/ismapper/main.nf
@@ -2,7 +2,7 @@ process ISMAPPER {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ismapper=2.0.2" : null)
+    conda "bioconda::ismapper=2.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ismapper:2.0.2--pyhdfd78af_1' :
         'quay.io/biocontainers/ismapper:2.0.2--pyhdfd78af_1' }"
diff --git a/modules/nf-core/isoseq3/cluster/main.nf b/modules/nf-core/isoseq3/cluster/main.nf
index ed08b900a0a..7ff24e944b0 100644
--- a/modules/nf-core/isoseq3/cluster/main.nf
+++ b/modules/nf-core/isoseq3/cluster/main.nf
@@ -2,7 +2,7 @@ process ISOSEQ3_CLUSTER {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::isoseq3=3.8.1" : null)
+    conda "bioconda::isoseq3=3.8.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/isoseq3:3.8.1--h9ee0642_0' :
         'quay.io/biocontainers/isoseq3:3.8.1--h9ee0642_0' }"
diff --git a/modules/nf-core/isoseq3/refine/main.nf b/modules/nf-core/isoseq3/refine/main.nf
index 5ac35959ab3..b57e3ba2526 100644
--- a/modules/nf-core/isoseq3/refine/main.nf
+++ b/modules/nf-core/isoseq3/refine/main.nf
@@ -2,7 +2,7 @@ process ISOSEQ3_REFINE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::isoseq3=3.8.1" : null)
+    conda "bioconda::isoseq3=3.8.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/isoseq3:3.8.1--h9ee0642_0' :
         'quay.io/biocontainers/isoseq3:3.8.1--h9ee0642_0' }"
diff --git a/modules/nf-core/ivar/consensus/main.nf b/modules/nf-core/ivar/consensus/main.nf
index db6301e9066..66a5fdb1622 100644
--- a/modules/nf-core/ivar/consensus/main.nf
+++ b/modules/nf-core/ivar/consensus/main.nf
@@ -2,7 +2,7 @@ process IVAR_CONSENSUS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ivar=1.3.1" : null)
+    conda "bioconda::ivar=1.3.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ivar:1.3.1--h089eab3_0' :
         'quay.io/biocontainers/ivar:1.3.1--h089eab3_0' }"
diff --git a/modules/nf-core/ivar/trim/main.nf b/modules/nf-core/ivar/trim/main.nf
index 819aa5dd103..248501b3e8a 100644
--- a/modules/nf-core/ivar/trim/main.nf
+++ b/modules/nf-core/ivar/trim/main.nf
@@ -2,7 +2,7 @@ process IVAR_TRIM {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ivar=1.3.1" : null)
+    conda "bioconda::ivar=1.3.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ivar:1.3.1--h089eab3_0' :
         'quay.io/biocontainers/ivar:1.3.1--h089eab3_0' }"
diff --git a/modules/nf-core/ivar/variants/main.nf b/modules/nf-core/ivar/variants/main.nf
index b86042f05fd..c6a49857ba9 100644
--- a/modules/nf-core/ivar/variants/main.nf
+++ b/modules/nf-core/ivar/variants/main.nf
@@ -2,7 +2,7 @@ process IVAR_VARIANTS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ivar=1.3.1" : null)
+    conda "bioconda::ivar=1.3.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ivar:1.3.1--h089eab3_0' :
         'quay.io/biocontainers/ivar:1.3.1--h089eab3_0' }"
diff --git a/modules/nf-core/jupyternotebook/main.nf b/modules/nf-core/jupyternotebook/main.nf
index baed502c371..ec3f124ff98 100644
--- a/modules/nf-core/jupyternotebook/main.nf
+++ b/modules/nf-core/jupyternotebook/main.nf
@@ -7,7 +7,7 @@ process JUPYTERNOTEBOOK {
     //NB: You likely want to override this with a container containing all required
     //dependencies for your analysis. The container at least needs to contain the
     //ipykernel, jupytext, papermill and nbconvert Python packages.
-    conda (params.enable_conda ? "ipykernel=6.0.3 jupytext=1.11.4 nbconvert=6.1.0 papermill=2.3.3 matplotlib=3.4.2" : null)
+    conda "conda-forge::ipykernel=6.0.3 conda-forge::jupytext=1.11.4 conda-forge::nbconvert=6.1.0 conda-forge::papermill=2.3.3 conda-forge::matplotlib=3.4.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-514b1a5d280c7043110b2a8d0a87b57ba392a963:879972fc8bdc81ee92f2bce3b4805d89a772bf84-0' :
         'quay.io/biocontainers/mulled-v2-514b1a5d280c7043110b2a8d0a87b57ba392a963:879972fc8bdc81ee92f2bce3b4805d89a772bf84-0' }"
diff --git a/modules/nf-core/kaiju/kaiju/main.nf b/modules/nf-core/kaiju/kaiju/main.nf
index ae8f99e6022..1d24e64d20f 100644
--- a/modules/nf-core/kaiju/kaiju/main.nf
+++ b/modules/nf-core/kaiju/kaiju/main.nf
@@ -2,7 +2,7 @@ process KAIJU_KAIJU {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::kaiju=1.8.2" : null)
+    conda "bioconda::kaiju=1.8.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/kaiju:1.8.2--h5b5514e_1':
         'quay.io/biocontainers/kaiju:1.8.2--h5b5514e_1' }"
diff --git a/modules/nf-core/kaiju/kaiju2krona/main.nf b/modules/nf-core/kaiju/kaiju2krona/main.nf
index 3f35ce7ee31..fb8da1ea4b7 100644
--- a/modules/nf-core/kaiju/kaiju2krona/main.nf
+++ b/modules/nf-core/kaiju/kaiju2krona/main.nf
@@ -2,7 +2,7 @@ process KAIJU_KAIJU2KRONA {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::kaiju=1.8.2" : null)
+    conda "bioconda::kaiju=1.8.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/kaiju:1.8.2--h5b5514e_1':
         'quay.io/biocontainers/kaiju:1.8.2--h5b5514e_1' }"
diff --git a/modules/nf-core/kaiju/kaiju2table/main.nf b/modules/nf-core/kaiju/kaiju2table/main.nf
index 8648d561d22..52bd6437679 100644
--- a/modules/nf-core/kaiju/kaiju2table/main.nf
+++ b/modules/nf-core/kaiju/kaiju2table/main.nf
@@ -2,7 +2,7 @@ process KAIJU_KAIJU2TABLE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::kaiju=1.8.2" : null)
+    conda "bioconda::kaiju=1.8.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/kaiju:1.8.2--h5b5514e_1':
         'quay.io/biocontainers/kaiju:1.8.2--h2e03b76_0' }"
diff --git a/modules/nf-core/kallisto/index/main.nf b/modules/nf-core/kallisto/index/main.nf
index 8b25b7e2867..a24024b4b9c 100644
--- a/modules/nf-core/kallisto/index/main.nf
+++ b/modules/nf-core/kallisto/index/main.nf
@@ -2,7 +2,7 @@ process KALLISTO_INDEX {
     tag "$fasta"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::kallisto=0.46.2" : null)
+    conda "bioconda::kallisto=0.46.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/kallisto:0.46.2--h4f7b962_1' :
         'quay.io/biocontainers/kallisto:0.46.2--h4f7b962_1' }"
diff --git a/modules/nf-core/kallistobustools/count/main.nf b/modules/nf-core/kallistobustools/count/main.nf
index 52accd3195f..c585eb072c0 100644
--- a/modules/nf-core/kallistobustools/count/main.nf
+++ b/modules/nf-core/kallistobustools/count/main.nf
@@ -2,7 +2,7 @@ process KALLISTOBUSTOOLS_COUNT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::kb-python=0.27.2' : null)
+    conda "bioconda::kb-python=0.27.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/kb-python:0.27.2--pyhdfd78af_0' :
         'quay.io/biocontainers/kb-python:0.27.2--pyhdfd78af_0' }"
diff --git a/modules/nf-core/kallistobustools/ref/main.nf b/modules/nf-core/kallistobustools/ref/main.nf
index 89943ec96c1..22bb2b6f882 100644
--- a/modules/nf-core/kallistobustools/ref/main.nf
+++ b/modules/nf-core/kallistobustools/ref/main.nf
@@ -2,7 +2,7 @@ process KALLISTOBUSTOOLS_REF {
     tag "$fasta"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::kb-python=0.27.2' : null)
+    conda "bioconda::kb-python=0.27.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/kb-python:0.27.2--pyhdfd78af_0' :
         'quay.io/biocontainers/kb-python:0.27.2--pyhdfd78af_0' }"
diff --git a/modules/nf-core/kat/hist/main.nf b/modules/nf-core/kat/hist/main.nf
index e9a486f904c..fb2bc221408 100644
--- a/modules/nf-core/kat/hist/main.nf
+++ b/modules/nf-core/kat/hist/main.nf
@@ -2,7 +2,7 @@ process KAT_HIST {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::kat=2.4.2" : null)
+    conda "bioconda::kat=2.4.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/kat:2.4.2--py38hfc5f9d8_2':
         'quay.io/biocontainers/kat:2.4.2--py38hfc5f9d8_2' }"
diff --git a/modules/nf-core/khmer/normalizebymedian/main.nf b/modules/nf-core/khmer/normalizebymedian/main.nf
index f89b2585b6e..aadb833ea69 100644
--- a/modules/nf-core/khmer/normalizebymedian/main.nf
+++ b/modules/nf-core/khmer/normalizebymedian/main.nf
@@ -2,7 +2,7 @@ process KHMER_NORMALIZEBYMEDIAN {
     tag "${name}"
     label 'process_long'
 
-    conda (params.enable_conda ? "bioconda::khmer=3.0.0a3" : null)
+    conda "bioconda::khmer=3.0.0a3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/khmer:3.0.0a3--py37haa7609a_2' :
         'quay.io/biocontainers/khmer:3.0.0a3--py37haa7609a_2' }"
diff --git a/modules/nf-core/khmer/uniquekmers/main.nf b/modules/nf-core/khmer/uniquekmers/main.nf
index 8ad89a6287b..02746ae19d4 100644
--- a/modules/nf-core/khmer/uniquekmers/main.nf
+++ b/modules/nf-core/khmer/uniquekmers/main.nf
@@ -2,7 +2,7 @@ process KHMER_UNIQUEKMERS {
     tag "$fasta"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::khmer=3.0.0a3" : null)
+    conda "bioconda::khmer=3.0.0a3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/khmer:3.0.0a3--py37haa7609a_2' :
         'quay.io/biocontainers/khmer:3.0.0a3--py37haa7609a_2' }"
diff --git a/modules/nf-core/kleborate/main.nf b/modules/nf-core/kleborate/main.nf
index 88cbc951b91..2c1109e3bcc 100644
--- a/modules/nf-core/kleborate/main.nf
+++ b/modules/nf-core/kleborate/main.nf
@@ -2,7 +2,7 @@ process KLEBORATE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::kleborate=2.1.0" : null)
+    conda "bioconda::kleborate=2.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/kleborate:2.1.0--pyhdfd78af_1' :
         'quay.io/biocontainers/kleborate:2.1.0--pyhdfd78af_1' }"
diff --git a/modules/nf-core/kofamscan/main.nf b/modules/nf-core/kofamscan/main.nf
index c97e56198b9..88ae62badac 100644
--- a/modules/nf-core/kofamscan/main.nf
+++ b/modules/nf-core/kofamscan/main.nf
@@ -2,7 +2,7 @@ process KOFAMSCAN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::kofamscan=1.3.0" : null)
+    conda "bioconda::kofamscan=1.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/kofamscan:1.3.0--hdfd78af_2':
         'quay.io/biocontainers/kofamscan:1.3.0--hdfd78af_2' }"
diff --git a/modules/nf-core/kraken2/kraken2/main.nf b/modules/nf-core/kraken2/kraken2/main.nf
index 43a167916a2..1b9e760d2d9 100644
--- a/modules/nf-core/kraken2/kraken2/main.nf
+++ b/modules/nf-core/kraken2/kraken2/main.nf
@@ -2,7 +2,7 @@ process KRAKEN2_KRAKEN2 {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::kraken2=2.1.2 conda-forge::pigz=2.6' : null)
+    conda "bioconda::kraken2=2.1.2 conda-forge::pigz=2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-5799ab18b5fc681e75923b2450abaa969907ec98:87fc08d11968d081f3e8a37131c1f1f6715b6542-0' :
         'quay.io/biocontainers/mulled-v2-5799ab18b5fc681e75923b2450abaa969907ec98:87fc08d11968d081f3e8a37131c1f1f6715b6542-0' }"
diff --git a/modules/nf-core/krakentools/combinekreports/main.nf b/modules/nf-core/krakentools/combinekreports/main.nf
index fdcc2459855..b4ea504eb0d 100644
--- a/modules/nf-core/krakentools/combinekreports/main.nf
+++ b/modules/nf-core/krakentools/combinekreports/main.nf
@@ -1,7 +1,7 @@
 process KRAKENTOOLS_COMBINEKREPORTS {
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::krakentools=1.2" : null)
+    conda "bioconda::krakentools=1.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/krakentools:1.2--pyh5e36f6f_0':
         'quay.io/biocontainers/krakentools:1.2--pyh5e36f6f_0' }"
diff --git a/modules/nf-core/krakentools/kreport2krona/main.nf b/modules/nf-core/krakentools/kreport2krona/main.nf
index 8ed46f1327c..df439acd246 100644
--- a/modules/nf-core/krakentools/kreport2krona/main.nf
+++ b/modules/nf-core/krakentools/kreport2krona/main.nf
@@ -3,7 +3,7 @@ process KRAKENTOOLS_KREPORT2KRONA {
     label 'process_single'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::krakentools=1.2" : null)
+    conda "bioconda::krakentools=1.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/krakentools:1.2--pyh5e36f6f_0':
         'quay.io/biocontainers/krakentools:1.2--pyh5e36f6f_0' }"
diff --git a/modules/nf-core/krakenuniq/build/main.nf b/modules/nf-core/krakenuniq/build/main.nf
index cad3862944b..04b05a55fb6 100644
--- a/modules/nf-core/krakenuniq/build/main.nf
+++ b/modules/nf-core/krakenuniq/build/main.nf
@@ -2,7 +2,7 @@ process KRAKENUNIQ_BUILD {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::krakenuniq=1.0.1a" : null)
+    conda "bioconda::krakenuniq=1.0.1a"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/krakenuniq:1.0.1a--pl5321h19e8d03_1':
         'quay.io/biocontainers/krakenuniq:1.0.1a--pl5321h19e8d03_1' }"
diff --git a/modules/nf-core/krakenuniq/download/main.nf b/modules/nf-core/krakenuniq/download/main.nf
index 48fb5bc4567..47ffcb76a2a 100644
--- a/modules/nf-core/krakenuniq/download/main.nf
+++ b/modules/nf-core/krakenuniq/download/main.nf
@@ -1,7 +1,7 @@
 process KRAKENUNIQ_DOWNLOAD {
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::krakenuniq=1.0.1a" : null)
+    conda "bioconda::krakenuniq=1.0.1a"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/krakenuniq:1.0.1a--pl5321h19e8d03_1':
         'quay.io/biocontainers/krakenuniq:1.0.1a--pl5321h19e8d03_1' }"
diff --git a/modules/nf-core/krakenuniq/preloadedkrakenuniq/main.nf b/modules/nf-core/krakenuniq/preloadedkrakenuniq/main.nf
index 0ecaceeda8c..1c9320598f9 100644
--- a/modules/nf-core/krakenuniq/preloadedkrakenuniq/main.nf
+++ b/modules/nf-core/krakenuniq/preloadedkrakenuniq/main.nf
@@ -2,7 +2,7 @@ process KRAKENUNIQ_PRELOADEDKRAKENUNIQ {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::krakenuniq=1.0.0" : null)
+    conda "bioconda::krakenuniq=1.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/krakenuniq:1.0.0--pl5321h19e8d03_0':
         'quay.io/biocontainers/krakenuniq:1.0.0--pl5321h19e8d03_0' }"
diff --git a/modules/nf-core/krona/kronadb/main.nf b/modules/nf-core/krona/kronadb/main.nf
index 88fe24f7e30..89744f6fc5b 100644
--- a/modules/nf-core/krona/kronadb/main.nf
+++ b/modules/nf-core/krona/kronadb/main.nf
@@ -3,7 +3,7 @@ def VERSION='2.7.1' // Version information not provided by tool on CLI
 process KRONA_KRONADB {
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::krona=2.7.1" : null)
+    conda "bioconda::krona=2.7.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/krona:2.7.1--pl526_5' :
         'quay.io/biocontainers/krona:2.7.1--pl526_5' }"
diff --git a/modules/nf-core/krona/ktimporttaxonomy/main.nf b/modules/nf-core/krona/ktimporttaxonomy/main.nf
index 79c01d71cb1..3a76f66f410 100644
--- a/modules/nf-core/krona/ktimporttaxonomy/main.nf
+++ b/modules/nf-core/krona/ktimporttaxonomy/main.nf
@@ -3,7 +3,7 @@ process KRONA_KTIMPORTTAXONOMY {
     label 'process_single'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::krona=2.8" : null)
+    conda "bioconda::krona=2.8"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/krona:2.8--pl5262hdfd78af_2' :
         'quay.io/biocontainers/krona:2.8--pl5262hdfd78af_2' }"
diff --git a/modules/nf-core/krona/ktimporttext/main.nf b/modules/nf-core/krona/ktimporttext/main.nf
index edf7aab64d9..53f30266844 100644
--- a/modules/nf-core/krona/ktimporttext/main.nf
+++ b/modules/nf-core/krona/ktimporttext/main.nf
@@ -2,7 +2,7 @@ process KRONA_KTIMPORTTEXT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::krona=2.8.1" : null)
+    conda "bioconda::krona=2.8.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/krona:2.8.1--pl5321hdfd78af_1':
         'quay.io/biocontainers/krona:2.8.1--pl5321hdfd78af_1' }"
diff --git a/modules/nf-core/krona/ktupdatetaxonomy/main.nf b/modules/nf-core/krona/ktupdatetaxonomy/main.nf
index ef51a291397..9f4f645f688 100644
--- a/modules/nf-core/krona/ktupdatetaxonomy/main.nf
+++ b/modules/nf-core/krona/ktupdatetaxonomy/main.nf
@@ -3,7 +3,7 @@ def VERSION='2.7.1' // Version information not provided by tool on CLI
 process KRONA_KTUPDATETAXONOMY {
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::krona=2.7.1" : null)
+    conda "bioconda::krona=2.7.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/krona:2.7.1--pl526_5' :
         'quay.io/biocontainers/krona:2.7.1--pl526_5' }"
diff --git a/modules/nf-core/last/dotplot/main.nf b/modules/nf-core/last/dotplot/main.nf
index b223a65c61f..a9c4462cfcd 100644
--- a/modules/nf-core/last/dotplot/main.nf
+++ b/modules/nf-core/last/dotplot/main.nf
@@ -2,7 +2,7 @@ process LAST_DOTPLOT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::last=1418' : null)
+    conda "bioconda::last=1418"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/last:1418--h5b5514e_0' :
         'quay.io/biocontainers/last:1418--h5b5514e_0' }"
diff --git a/modules/nf-core/last/lastal/main.nf b/modules/nf-core/last/lastal/main.nf
index dec225a70f7..f4b62caec92 100644
--- a/modules/nf-core/last/lastal/main.nf
+++ b/modules/nf-core/last/lastal/main.nf
@@ -2,7 +2,7 @@ process LAST_LASTAL {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::last=1418' : null)
+    conda "bioconda::last=1418"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/last:1418--h5b5514e_0' :
         'quay.io/biocontainers/last:1418--h5b5514e_0' }"
diff --git a/modules/nf-core/last/lastdb/main.nf b/modules/nf-core/last/lastdb/main.nf
index 37547b4de55..b7cbda01d83 100644
--- a/modules/nf-core/last/lastdb/main.nf
+++ b/modules/nf-core/last/lastdb/main.nf
@@ -2,7 +2,7 @@ process LAST_LASTDB {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::last=1418' : null)
+    conda "bioconda::last=1418"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/last:1418--h5b5514e_0' :
         'quay.io/biocontainers/last:1418--h5b5514e_0' }"
diff --git a/modules/nf-core/last/mafconvert/main.nf b/modules/nf-core/last/mafconvert/main.nf
index 01c79a536a0..42e6b1aa1c1 100644
--- a/modules/nf-core/last/mafconvert/main.nf
+++ b/modules/nf-core/last/mafconvert/main.nf
@@ -2,7 +2,7 @@ process LAST_MAFCONVERT {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::last=1418' : null)
+    conda "bioconda::last=1418"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/last:1418--h5b5514e_0' :
         'quay.io/biocontainers/last:1418--h5b5514e_0' }"
diff --git a/modules/nf-core/last/mafswap/main.nf b/modules/nf-core/last/mafswap/main.nf
index 6e0a9cbf373..580a20d8b9b 100644
--- a/modules/nf-core/last/mafswap/main.nf
+++ b/modules/nf-core/last/mafswap/main.nf
@@ -2,7 +2,7 @@ process LAST_MAFSWAP {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::last=1418' : null)
+    conda "bioconda::last=1418"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/last:1418--h5b5514e_0' :
         'quay.io/biocontainers/last:1418--h5b5514e_0' }"
diff --git a/modules/nf-core/last/postmask/main.nf b/modules/nf-core/last/postmask/main.nf
index 4aa4a868e48..eac417fbd76 100644
--- a/modules/nf-core/last/postmask/main.nf
+++ b/modules/nf-core/last/postmask/main.nf
@@ -2,7 +2,7 @@ process LAST_POSTMASK {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::last=1418' : null)
+    conda "bioconda::last=1418"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/last:1418--h5b5514e_0' :
         'quay.io/biocontainers/last:1418--h5b5514e_0' }"
diff --git a/modules/nf-core/last/split/main.nf b/modules/nf-core/last/split/main.nf
index ba477a0f285..c42d02715be 100644
--- a/modules/nf-core/last/split/main.nf
+++ b/modules/nf-core/last/split/main.nf
@@ -2,7 +2,7 @@ process LAST_SPLIT {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::last=1418' : null)
+    conda "bioconda::last=1418"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/last:1418--h5b5514e_0' :
         'quay.io/biocontainers/last:1418--h5b5514e_0' }"
diff --git a/modules/nf-core/last/train/main.nf b/modules/nf-core/last/train/main.nf
index 073e96f5cda..8905b59eb75 100644
--- a/modules/nf-core/last/train/main.nf
+++ b/modules/nf-core/last/train/main.nf
@@ -2,7 +2,7 @@ process LAST_TRAIN {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::last=1418' : null)
+    conda "bioconda::last=1418"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/last:1418--h5b5514e_0' :
         'quay.io/biocontainers/last:1418--h5b5514e_0' }"
diff --git a/modules/nf-core/leehom/main.nf b/modules/nf-core/leehom/main.nf
index aa11fe03427..0c847d24c97 100644
--- a/modules/nf-core/leehom/main.nf
+++ b/modules/nf-core/leehom/main.nf
@@ -3,7 +3,7 @@ process LEEHOM {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::leehom=1.2.15" : null)
+    conda "bioconda::leehom=1.2.15"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/leehom:1.2.15--h29e30f7_1' :
         'quay.io/biocontainers/leehom:1.2.15--h29e30f7_1' }"
diff --git a/modules/nf-core/legsta/main.nf b/modules/nf-core/legsta/main.nf
index 8e2a3ae3cc8..d1aeb9bcd70 100644
--- a/modules/nf-core/legsta/main.nf
+++ b/modules/nf-core/legsta/main.nf
@@ -2,7 +2,7 @@ process LEGSTA {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::legsta=0.5.1" : null)
+    conda "bioconda::legsta=0.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/legsta%3A0.5.1--hdfd78af_2':
         'quay.io/biocontainers/legsta:0.5.1--hdfd78af_2' }"
diff --git a/modules/nf-core/lima/main.nf b/modules/nf-core/lima/main.nf
index 020109c45c7..629d12abc28 100644
--- a/modules/nf-core/lima/main.nf
+++ b/modules/nf-core/lima/main.nf
@@ -2,7 +2,7 @@ process LIMA {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::lima=2.6.0" : null)
+    conda "bioconda::lima=2.6.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/lima:2.6.0--h9ee0642_0' :
         'quay.io/biocontainers/lima:2.6.0--h9ee0642_0' }"
diff --git a/modules/nf-core/lissero/main.nf b/modules/nf-core/lissero/main.nf
index 29995db8307..81d0a92dcd7 100644
--- a/modules/nf-core/lissero/main.nf
+++ b/modules/nf-core/lissero/main.nf
@@ -2,7 +2,7 @@ process LISSERO {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::lissero=0.4.9" : null)
+    conda "bioconda::lissero=0.4.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/lissero:0.4.9--py_0' :
         'quay.io/biocontainers/lissero:0.4.9--py_0' }"
diff --git a/modules/nf-core/lofreq/call/main.nf b/modules/nf-core/lofreq/call/main.nf
index 773bc21244b..64201016a95 100644
--- a/modules/nf-core/lofreq/call/main.nf
+++ b/modules/nf-core/lofreq/call/main.nf
@@ -2,7 +2,7 @@ process LOFREQ_CALL {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::lofreq=2.1.5" : null)
+    conda "bioconda::lofreq=2.1.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/lofreq:2.1.5--py38h588ecb2_4' :
         'quay.io/biocontainers/lofreq:2.1.5--py38h588ecb2_4' }"
diff --git a/modules/nf-core/lofreq/callparallel/main.nf b/modules/nf-core/lofreq/callparallel/main.nf
index 4dffc302a9e..7a439de7da0 100644
--- a/modules/nf-core/lofreq/callparallel/main.nf
+++ b/modules/nf-core/lofreq/callparallel/main.nf
@@ -2,7 +2,7 @@ process LOFREQ_CALLPARALLEL {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::lofreq=2.1.5" : null)
+    conda "bioconda::lofreq=2.1.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/lofreq:2.1.5--py38h588ecb2_4' :
         'quay.io/biocontainers/lofreq:2.1.5--py38h588ecb2_4' }"
diff --git a/modules/nf-core/lofreq/filter/main.nf b/modules/nf-core/lofreq/filter/main.nf
index bddc012f8fd..a4547bd3058 100644
--- a/modules/nf-core/lofreq/filter/main.nf
+++ b/modules/nf-core/lofreq/filter/main.nf
@@ -2,7 +2,7 @@ process LOFREQ_FILTER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::lofreq=2.1.5" : null)
+    conda "bioconda::lofreq=2.1.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/lofreq:2.1.5--py38h588ecb2_4' :
         'quay.io/biocontainers/lofreq:2.1.5--py38h588ecb2_4' }"
diff --git a/modules/nf-core/lofreq/indelqual/main.nf b/modules/nf-core/lofreq/indelqual/main.nf
index ac53d70fc7e..166ac4aff8b 100644
--- a/modules/nf-core/lofreq/indelqual/main.nf
+++ b/modules/nf-core/lofreq/indelqual/main.nf
@@ -2,7 +2,7 @@ process LOFREQ_INDELQUAL {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::lofreq=2.1.5" : null)
+    conda "bioconda::lofreq=2.1.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/lofreq:2.1.5--py38h588ecb2_4' :
         'quay.io/biocontainers/lofreq:2.1.5--py38h588ecb2_4' }"
diff --git a/modules/nf-core/macrel/contigs/main.nf b/modules/nf-core/macrel/contigs/main.nf
index 65db4d3e8e0..624961521bc 100644
--- a/modules/nf-core/macrel/contigs/main.nf
+++ b/modules/nf-core/macrel/contigs/main.nf
@@ -2,7 +2,7 @@ process MACREL_CONTIGS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::macrel=1.1.0" : null)
+    conda "bioconda::macrel=1.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/macrel:1.1.0--py36hc5360cc_0':
         'quay.io/biocontainers/macrel:1.1.0--py36hc5360cc_0' }"
diff --git a/modules/nf-core/macs2/callpeak/main.nf b/modules/nf-core/macs2/callpeak/main.nf
index 9aaf97a93be..feca042588f 100644
--- a/modules/nf-core/macs2/callpeak/main.nf
+++ b/modules/nf-core/macs2/callpeak/main.nf
@@ -2,7 +2,7 @@ process MACS2_CALLPEAK {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::macs2=2.2.7.1" : null)
+    conda "bioconda::macs2=2.2.7.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/macs2:2.2.7.1--py38h4a8c8d9_3' :
         'quay.io/biocontainers/macs2:2.2.7.1--py38h4a8c8d9_3' }"
diff --git a/modules/nf-core/mafft/main.nf b/modules/nf-core/mafft/main.nf
index 99485b61d7b..b58b1d93794 100644
--- a/modules/nf-core/mafft/main.nf
+++ b/modules/nf-core/mafft/main.nf
@@ -2,7 +2,7 @@ process MAFFT {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::mafft=7.490" : null)
+    conda "bioconda::mafft=7.490"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mafft:7.490--h779adbc_0':
         'quay.io/biocontainers/mafft:7.490--h779adbc_0' }"
diff --git a/modules/nf-core/mageck/count/main.nf b/modules/nf-core/mageck/count/main.nf
index e1d53dfd0cb..2896b74afa7 100644
--- a/modules/nf-core/mageck/count/main.nf
+++ b/modules/nf-core/mageck/count/main.nf
@@ -2,7 +2,7 @@ process MAGECK_COUNT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::mageck=0.5.9" : null)
+    conda "bioconda::mageck=0.5.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mageck:0.5.9--py37h6bb024c_0':
         'quay.io/biocontainers/mageck:0.5.9--py37h6bb024c_0' }"
diff --git a/modules/nf-core/mageck/mle/main.nf b/modules/nf-core/mageck/mle/main.nf
index 09b5cfd67b2..fd4c9f63daa 100644
--- a/modules/nf-core/mageck/mle/main.nf
+++ b/modules/nf-core/mageck/mle/main.nf
@@ -2,7 +2,7 @@ process MAGECK_MLE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::mageck=0.5.9" : null)
+    conda "bioconda::mageck=0.5.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mageck:0.5.9--py37h6bb024c_0':
         'quay.io/biocontainers/mageck:0.5.9--py37h6bb024c_0' }"
diff --git a/modules/nf-core/malt/build/main.nf b/modules/nf-core/malt/build/main.nf
index a22095b54a6..e89c07901c7 100644
--- a/modules/nf-core/malt/build/main.nf
+++ b/modules/nf-core/malt/build/main.nf
@@ -2,7 +2,7 @@ process MALT_BUILD {
 
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::malt=0.61" : null)
+    conda "bioconda::malt=0.61"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/malt:0.61--hdfd78af_0' :
         'quay.io/biocontainers/malt:0.61--hdfd78af_0' }"
diff --git a/modules/nf-core/malt/run/main.nf b/modules/nf-core/malt/run/main.nf
index 2e75b4c77f4..83987d99c1b 100644
--- a/modules/nf-core/malt/run/main.nf
+++ b/modules/nf-core/malt/run/main.nf
@@ -2,7 +2,7 @@ process MALT_RUN {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::malt=0.61" : null)
+    conda "bioconda::malt=0.61"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/malt:0.61--hdfd78af_0' :
         'quay.io/biocontainers/malt:0.61--hdfd78af_0' }"
diff --git a/modules/nf-core/maltextract/main.nf b/modules/nf-core/maltextract/main.nf
index 75710141780..d44b54c6070 100644
--- a/modules/nf-core/maltextract/main.nf
+++ b/modules/nf-core/maltextract/main.nf
@@ -2,7 +2,7 @@ process MALTEXTRACT {
 
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::hops=0.35" : null)
+    conda "bioconda::hops=0.35"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/hops:0.35--hdfd78af_1' :
         'quay.io/biocontainers/hops:0.35--hdfd78af_1' }"
diff --git a/modules/nf-core/manta/convertinversion/main.nf b/modules/nf-core/manta/convertinversion/main.nf
index eab881bd11a..e4bf8c345e9 100644
--- a/modules/nf-core/manta/convertinversion/main.nf
+++ b/modules/nf-core/manta/convertinversion/main.nf
@@ -2,7 +2,7 @@ process MANTA_CONVERTINVERSION {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::manta=1.6.0 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::manta=1.6.0 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-40295ae41112676b05b649e513fe7000675e9b84:a0332aa38645fbb8969567731ce68cfb7f830ec4-0':
         'quay.io/biocontainers/mulled-v2-40295ae41112676b05b649e513fe7000675e9b84:a0332aa38645fbb8969567731ce68cfb7f830ec4-0' }"
diff --git a/modules/nf-core/manta/germline/main.nf b/modules/nf-core/manta/germline/main.nf
index 5f2964fbd01..2feb6ed29ba 100644
--- a/modules/nf-core/manta/germline/main.nf
+++ b/modules/nf-core/manta/germline/main.nf
@@ -2,7 +2,7 @@ process MANTA_GERMLINE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::manta=1.6.0" : null)
+    conda "bioconda::manta=1.6.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/manta:1.6.0--h9ee0642_1' :
         'quay.io/biocontainers/manta:1.6.0--h9ee0642_1' }"
diff --git a/modules/nf-core/manta/somatic/main.nf b/modules/nf-core/manta/somatic/main.nf
index 0b40965b7c2..c559c8851b2 100644
--- a/modules/nf-core/manta/somatic/main.nf
+++ b/modules/nf-core/manta/somatic/main.nf
@@ -2,7 +2,7 @@ process MANTA_SOMATIC {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::manta=1.6.0" : null)
+    conda "bioconda::manta=1.6.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/manta:1.6.0--h9ee0642_1' :
         'quay.io/biocontainers/manta:1.6.0--h9ee0642_1' }"
diff --git a/modules/nf-core/manta/tumoronly/main.nf b/modules/nf-core/manta/tumoronly/main.nf
index 759f9cb9ec5..3fea008fc4d 100644
--- a/modules/nf-core/manta/tumoronly/main.nf
+++ b/modules/nf-core/manta/tumoronly/main.nf
@@ -2,7 +2,7 @@ process MANTA_TUMORONLY {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::manta=1.6.0" : null)
+    conda "bioconda::manta=1.6.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/manta:1.6.0--h9ee0642_1' :
         'quay.io/biocontainers/manta:1.6.0--h9ee0642_1' }"
diff --git a/modules/nf-core/mapdamage2/main.nf b/modules/nf-core/mapdamage2/main.nf
index b454b0a0add..238b1097868 100644
--- a/modules/nf-core/mapdamage2/main.nf
+++ b/modules/nf-core/mapdamage2/main.nf
@@ -2,7 +2,7 @@ process MAPDAMAGE2 {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::mapdamage2=2.2.1" : null)
+    conda "bioconda::mapdamage2=2.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mapdamage2:2.2.1--pyr40_0' :
         'quay.io/biocontainers/mapdamage2:2.2.1--pyr40_0' }"
diff --git a/modules/nf-core/mash/dist/main.nf b/modules/nf-core/mash/dist/main.nf
index 270767b5682..0821cd2fecf 100644
--- a/modules/nf-core/mash/dist/main.nf
+++ b/modules/nf-core/mash/dist/main.nf
@@ -2,7 +2,7 @@ process MASH_DIST {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::mash=2.3" : null)
+    conda "bioconda::mash=2.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mash:2.3--he348c14_1' :
         'quay.io/biocontainers/mash:2.3--he348c14_1' }"
diff --git a/modules/nf-core/mash/screen/main.nf b/modules/nf-core/mash/screen/main.nf
index be272cbb105..111a325e90e 100644
--- a/modules/nf-core/mash/screen/main.nf
+++ b/modules/nf-core/mash/screen/main.nf
@@ -2,7 +2,7 @@ process MASH_SCREEN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::mash=2.3" : null)
+    conda "bioconda::mash=2.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mash:2.3--he348c14_1':
         'quay.io/biocontainers/mash:2.3--he348c14_1' }"
diff --git a/modules/nf-core/mash/sketch/main.nf b/modules/nf-core/mash/sketch/main.nf
index 54263af775d..a55cea861a0 100644
--- a/modules/nf-core/mash/sketch/main.nf
+++ b/modules/nf-core/mash/sketch/main.nf
@@ -1,7 +1,7 @@
 process MASH_SKETCH {
     tag "$meta.id"
     label 'process_medium'
-    conda (params.enable_conda ? "bioconda::mash=2.3" : null)
+    conda "bioconda::mash=2.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mash:2.3--he348c14_1' :
         'quay.io/biocontainers/mash:2.3--he348c14_1' }"
diff --git a/modules/nf-core/mashtree/main.nf b/modules/nf-core/mashtree/main.nf
index 4cd9af1929e..5a84d5c7efe 100644
--- a/modules/nf-core/mashtree/main.nf
+++ b/modules/nf-core/mashtree/main.nf
@@ -2,7 +2,7 @@ process MASHTREE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::mashtree=1.2.0" : null)
+    conda "bioconda::mashtree=1.2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mashtree:1.2.0--pl526h516909a_0' :
         'quay.io/biocontainers/mashtree:1.2.0--pl526h516909a_0' }"
diff --git a/modules/nf-core/maxbin2/main.nf b/modules/nf-core/maxbin2/main.nf
index a48df43fd7a..3df1bc5f383 100644
--- a/modules/nf-core/maxbin2/main.nf
+++ b/modules/nf-core/maxbin2/main.nf
@@ -2,7 +2,7 @@ process MAXBIN2 {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::maxbin2=2.2.7" : null)
+    conda "bioconda::maxbin2=2.2.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/maxbin2:2.2.7--he1b5a44_2' :
         'quay.io/biocontainers/maxbin2:2.2.7--he1b5a44_2' }"
diff --git a/modules/nf-core/maxquant/lfq/main.nf b/modules/nf-core/maxquant/lfq/main.nf
index 3fc45725352..329a511b424 100644
--- a/modules/nf-core/maxquant/lfq/main.nf
+++ b/modules/nf-core/maxquant/lfq/main.nf
@@ -1,7 +1,7 @@
 process MAXQUANT_LFQ {
     tag "$meta.id"
     label 'process_long'
-    conda (params.enable_conda ? "bioconda::maxquant=2.0.3.0=py310hdfd78af_1" : null)
+    conda "bioconda::maxquant=2.0.3.0=py310hdfd78af_1"
     if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {
         container "https://depot.galaxyproject.org/singularity/maxquant:2.0.3.0--py310hdfd78af_1"
     } else {
diff --git a/modules/nf-core/mcroni/main.nf b/modules/nf-core/mcroni/main.nf
index e1f4b92df2e..5c63cdd97de 100644
--- a/modules/nf-core/mcroni/main.nf
+++ b/modules/nf-core/mcroni/main.nf
@@ -3,7 +3,7 @@ process MCRONI {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::mcroni=1.0.4" : null)
+    conda "bioconda::mcroni=1.0.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mcroni%3A1.0.4--pyh5e36f6f_0':
         'quay.io/biocontainers/mcroni:1.0.4--pyh5e36f6f_0' }"
diff --git a/modules/nf-core/md5sum/main.nf b/modules/nf-core/md5sum/main.nf
index c8d505a14ae..c3f9f893b92 100644
--- a/modules/nf-core/md5sum/main.nf
+++ b/modules/nf-core/md5sum/main.nf
@@ -2,7 +2,7 @@ process MD5SUM {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "conda-forge::coreutils=9.1" : null)
+    conda "conda-forge::coreutils=9.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ubuntu:20.04' :
         'ubuntu:20.04' }"
diff --git a/modules/nf-core/medaka/main.nf b/modules/nf-core/medaka/main.nf
index da77d0f0d41..027c7f08dbd 100644
--- a/modules/nf-core/medaka/main.nf
+++ b/modules/nf-core/medaka/main.nf
@@ -2,7 +2,7 @@ process MEDAKA {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::medaka=1.4.4" : null)
+    conda "bioconda::medaka=1.4.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/medaka:1.4.4--py38h130def0_0' :
         'quay.io/biocontainers/medaka:1.4.4--py38h130def0_0' }"
diff --git a/modules/nf-core/megahit/main.nf b/modules/nf-core/megahit/main.nf
index 6e6a1ad1030..0fbb78652a4 100644
--- a/modules/nf-core/megahit/main.nf
+++ b/modules/nf-core/megahit/main.nf
@@ -2,7 +2,7 @@ process MEGAHIT {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::megahit=1.2.9 conda-forge::pigz=2.6" : null)
+    conda "bioconda::megahit=1.2.9 conda-forge::pigz=2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-0f92c152b180c7cd39d9b0e6822f8c89ccb59c99:8ec213d21e5d03f9db54898a2baeaf8ec729b447-0' :
         'quay.io/biocontainers/mulled-v2-0f92c152b180c7cd39d9b0e6822f8c89ccb59c99:8ec213d21e5d03f9db54898a2baeaf8ec729b447-0' }"
diff --git a/modules/nf-core/megan/daa2info/main.nf b/modules/nf-core/megan/daa2info/main.nf
index ac499a0c5a5..cf8cd497f49 100644
--- a/modules/nf-core/megan/daa2info/main.nf
+++ b/modules/nf-core/megan/daa2info/main.nf
@@ -2,7 +2,7 @@ process MEGAN_DAA2INFO {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::megan=6.21.7" : null)
+    conda "bioconda::megan=6.21.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/megan:6.21.7--h9ee0642_0':
         'quay.io/biocontainers/megan:6.21.7--h9ee0642_0' }"
diff --git a/modules/nf-core/megan/rma2info/main.nf b/modules/nf-core/megan/rma2info/main.nf
index 9c6a094b688..a37a4d6da4f 100644
--- a/modules/nf-core/megan/rma2info/main.nf
+++ b/modules/nf-core/megan/rma2info/main.nf
@@ -2,7 +2,7 @@ process MEGAN_RMA2INFO {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::megan=6.21.7" : null)
+    conda "bioconda::megan=6.21.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/megan:6.21.7--h9ee0642_0':
         'quay.io/biocontainers/megan:6.21.7--h9ee0642_0' }"
diff --git a/modules/nf-core/meningotype/main.nf b/modules/nf-core/meningotype/main.nf
index 24c3002956a..5958edac8b1 100644
--- a/modules/nf-core/meningotype/main.nf
+++ b/modules/nf-core/meningotype/main.nf
@@ -2,7 +2,7 @@ process MENINGOTYPE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::meningotype=0.8.5" : null)
+    conda "bioconda::meningotype=0.8.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/meningotype:0.8.5--pyhdfd78af_0' :
         'quay.io/biocontainers/meningotype:0.8.5--pyhdfd78af_0' }"
diff --git a/modules/nf-core/merqury/main.nf b/modules/nf-core/merqury/main.nf
index 4b2d87cef79..2e5b06b8c59 100644
--- a/modules/nf-core/merqury/main.nf
+++ b/modules/nf-core/merqury/main.nf
@@ -2,7 +2,7 @@ process MERQURY {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::merqury=1.3" : null)
+    conda "bioconda::merqury=1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/merqury:1.3--hdfd78af_1':
         'quay.io/biocontainers/merqury:1.3--hdfd78af_1' }"
diff --git a/modules/nf-core/merquryfk/katcomp/main.nf b/modules/nf-core/merquryfk/katcomp/main.nf
index 266f030aacb..3a67ecd13d3 100644
--- a/modules/nf-core/merquryfk/katcomp/main.nf
+++ b/modules/nf-core/merquryfk/katcomp/main.nf
@@ -2,9 +2,6 @@ process MERQURYFK_KATCOMP {
     tag "$meta.id"
     label 'process_medium'
 
-    if (params.enable_conda) {
-        error "Conda environments cannot be used when using the FastK tool. Please use docker or singularity containers."
-    }
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
     container 'ghcr.io/nbisweden/fastk_genescopefk_merquryfk:1.2'
 
diff --git a/modules/nf-core/merquryfk/katgc/main.nf b/modules/nf-core/merquryfk/katgc/main.nf
index 82153101e12..3bef805aeb8 100644
--- a/modules/nf-core/merquryfk/katgc/main.nf
+++ b/modules/nf-core/merquryfk/katgc/main.nf
@@ -2,9 +2,6 @@ process MERQURYFK_KATGC {
     tag "$meta.id"
     label 'process_medium'
 
-    if (params.enable_conda) {
-        error "Conda environments cannot be used when using the FastK tool. Please use docker or singularity containers."
-    }
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
     container 'ghcr.io/nbisweden/fastk_genescopefk_merquryfk:1.2'
 
diff --git a/modules/nf-core/merquryfk/merquryfk/main.nf b/modules/nf-core/merquryfk/merquryfk/main.nf
index f74f1abf699..573451fbddd 100644
--- a/modules/nf-core/merquryfk/merquryfk/main.nf
+++ b/modules/nf-core/merquryfk/merquryfk/main.nf
@@ -2,9 +2,6 @@ process MERQURYFK_MERQURYFK {
     tag "$meta.id"
     label 'process_medium'
 
-    if (params.enable_conda) {
-        error "Conda environments cannot be used when using the FastK tool. Please use docker or singularity containers."
-    }
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
     container 'ghcr.io/nbisweden/fastk_genescopefk_merquryfk:1.2'
 
diff --git a/modules/nf-core/merquryfk/ploidyplot/main.nf b/modules/nf-core/merquryfk/ploidyplot/main.nf
index cde2255bda1..f5a59c25aaa 100644
--- a/modules/nf-core/merquryfk/ploidyplot/main.nf
+++ b/modules/nf-core/merquryfk/ploidyplot/main.nf
@@ -2,9 +2,6 @@ process MERQURYFK_PLOIDYPLOT {
     tag "$meta.id"
     label 'process_medium'
 
-    if (params.enable_conda) {
-        error "Conda environments cannot be used when using the FastK tool. Please use docker or singularity containers."
-    }
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
     container 'ghcr.io/nbisweden/fastk_genescopefk_merquryfk:1.2'
 
diff --git a/modules/nf-core/meryl/count/main.nf b/modules/nf-core/meryl/count/main.nf
index f7a2811ddd2..e133caea404 100644
--- a/modules/nf-core/meryl/count/main.nf
+++ b/modules/nf-core/meryl/count/main.nf
@@ -2,7 +2,7 @@ process MERYL_COUNT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::meryl=1.3" : null)
+    conda "bioconda::meryl=1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/meryl:1.3--h87f3376_1':
         'quay.io/biocontainers/meryl:1.3--h87f3376_1' }"
diff --git a/modules/nf-core/meryl/histogram/main.nf b/modules/nf-core/meryl/histogram/main.nf
index a1f18f0589e..b69f0a2d3ac 100644
--- a/modules/nf-core/meryl/histogram/main.nf
+++ b/modules/nf-core/meryl/histogram/main.nf
@@ -2,7 +2,7 @@ process MERYL_HISTOGRAM {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::meryl=1.3" : null)
+    conda "bioconda::meryl=1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/meryl:1.3--h87f3376_1':
         'quay.io/biocontainers/meryl:1.3--h87f3376_1' }"
diff --git a/modules/nf-core/meryl/unionsum/main.nf b/modules/nf-core/meryl/unionsum/main.nf
index 98baa870112..881b522d151 100644
--- a/modules/nf-core/meryl/unionsum/main.nf
+++ b/modules/nf-core/meryl/unionsum/main.nf
@@ -2,7 +2,7 @@ process MERYL_UNIONSUM {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::meryl=1.3" : null)
+    conda "bioconda::meryl=1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/meryl:1.3--h87f3376_1':
         'quay.io/biocontainers/meryl:1.3--h87f3376_1' }"
diff --git a/modules/nf-core/metabat2/jgisummarizebamcontigdepths/main.nf b/modules/nf-core/metabat2/jgisummarizebamcontigdepths/main.nf
index 7125eeb22eb..7b161a89a48 100644
--- a/modules/nf-core/metabat2/jgisummarizebamcontigdepths/main.nf
+++ b/modules/nf-core/metabat2/jgisummarizebamcontigdepths/main.nf
@@ -2,7 +2,7 @@ process METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::metabat2=2.15" : null)
+    conda "bioconda::metabat2=2.15"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/metabat2:2.15--h986a166_1' :
         'quay.io/biocontainers/metabat2:2.15--h986a166_1' }"
diff --git a/modules/nf-core/metabat2/metabat2/main.nf b/modules/nf-core/metabat2/metabat2/main.nf
index 23ebe19a2dd..99393869a14 100644
--- a/modules/nf-core/metabat2/metabat2/main.nf
+++ b/modules/nf-core/metabat2/metabat2/main.nf
@@ -2,7 +2,7 @@ process METABAT2_METABAT2 {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::metabat2=2.15" : null)
+    conda "bioconda::metabat2=2.15"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/metabat2:2.15--h986a166_1' :
         'quay.io/biocontainers/metabat2:2.15--h986a166_1' }"
diff --git a/modules/nf-core/metaphlan3/mergemetaphlantables/main.nf b/modules/nf-core/metaphlan3/mergemetaphlantables/main.nf
index 7c37ecab08e..5be6e4f1b3c 100644
--- a/modules/nf-core/metaphlan3/mergemetaphlantables/main.nf
+++ b/modules/nf-core/metaphlan3/mergemetaphlantables/main.nf
@@ -1,7 +1,7 @@
 process METAPHLAN3_MERGEMETAPHLANTABLES {
     label 'process_single'
 
-    conda (params.enable_conda ? 'bioconda::metaphlan=3.0.12' : null)
+    conda "bioconda::metaphlan=3.0.12"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/metaphlan:3.0.12--pyhb7b1952_0' :
         'quay.io/biocontainers/metaphlan:3.0.12--pyhb7b1952_0' }"
diff --git a/modules/nf-core/metaphlan3/metaphlan3/main.nf b/modules/nf-core/metaphlan3/metaphlan3/main.nf
index 1453466d72a..34f8705ccfd 100644
--- a/modules/nf-core/metaphlan3/metaphlan3/main.nf
+++ b/modules/nf-core/metaphlan3/metaphlan3/main.nf
@@ -2,7 +2,7 @@ process METAPHLAN3_METAPHLAN3 {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::metaphlan=3.0.12' : null)
+    conda "bioconda::metaphlan=3.0.12"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/metaphlan:3.0.12--pyhb7b1952_0' :
         'quay.io/biocontainers/metaphlan:3.0.12--pyhb7b1952_0' }"
diff --git a/modules/nf-core/methyldackel/extract/main.nf b/modules/nf-core/methyldackel/extract/main.nf
index 2ad1dc68e26..d7d60254d03 100644
--- a/modules/nf-core/methyldackel/extract/main.nf
+++ b/modules/nf-core/methyldackel/extract/main.nf
@@ -2,7 +2,7 @@ process METHYLDACKEL_EXTRACT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::methyldackel=0.6.0' : null)
+    conda "bioconda::methyldackel=0.6.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/methyldackel:0.6.0--h22771d5_0' :
         'quay.io/biocontainers/methyldackel:0.6.0--h22771d5_0' }"
diff --git a/modules/nf-core/methyldackel/mbias/main.nf b/modules/nf-core/methyldackel/mbias/main.nf
index 755e62f88c0..48b5a965bb3 100644
--- a/modules/nf-core/methyldackel/mbias/main.nf
+++ b/modules/nf-core/methyldackel/mbias/main.nf
@@ -2,7 +2,7 @@ process METHYLDACKEL_MBIAS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::methyldackel=0.6.0' : null)
+    conda "bioconda::methyldackel=0.6.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/methyldackel:0.6.0--h22771d5_0' :
         'quay.io/biocontainers/methyldackel:0.6.0--h22771d5_0' }"
diff --git a/modules/nf-core/minia/main.nf b/modules/nf-core/minia/main.nf
index 87dd74f9aaa..fe242920fde 100644
--- a/modules/nf-core/minia/main.nf
+++ b/modules/nf-core/minia/main.nf
@@ -2,7 +2,7 @@ process MINIA {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::minia=3.2.6" : null)
+    conda "bioconda::minia=3.2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/minia:3.2.6--h9a82719_0' :
         'quay.io/biocontainers/minia:3.2.6--h9a82719_0' }"
diff --git a/modules/nf-core/miniasm/main.nf b/modules/nf-core/miniasm/main.nf
index f77b10f2225..ee388a038ef 100644
--- a/modules/nf-core/miniasm/main.nf
+++ b/modules/nf-core/miniasm/main.nf
@@ -2,7 +2,7 @@ process MINIASM {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::miniasm=0.3_r179" : null)
+    conda "bioconda::miniasm=0.3_r179"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/miniasm:0.3_r179--h5bf99c6_2' :
         'quay.io/biocontainers/miniasm:0.3_r179--h5bf99c6_2' }"
diff --git a/modules/nf-core/minimap2/align/main.nf b/modules/nf-core/minimap2/align/main.nf
index 5aff4ec2b41..430dbab9e61 100644
--- a/modules/nf-core/minimap2/align/main.nf
+++ b/modules/nf-core/minimap2/align/main.nf
@@ -3,7 +3,7 @@ process MINIMAP2_ALIGN {
     label 'process_medium'
 
     // Note: the versions here need to match the versions used in the mulled container below and minimap2/index
-    conda (params.enable_conda ? 'bioconda::minimap2=2.24 bioconda::samtools=1.14' : null)
+    conda "bioconda::minimap2=2.24 bioconda::samtools=1.14"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-66534bcbb7031a148b13e2ad42583020b9cd25c4:1679e915ddb9d6b4abda91880c4b48857d471bd8-0' :
         'quay.io/biocontainers/mulled-v2-66534bcbb7031a148b13e2ad42583020b9cd25c4:1679e915ddb9d6b4abda91880c4b48857d471bd8-0' }"
diff --git a/modules/nf-core/minimap2/index/main.nf b/modules/nf-core/minimap2/index/main.nf
index d258b0a515c..73dd4eefc64 100644
--- a/modules/nf-core/minimap2/index/main.nf
+++ b/modules/nf-core/minimap2/index/main.nf
@@ -2,7 +2,7 @@ process MINIMAP2_INDEX {
     label 'process_medium'
 
     // Note: the versions here need to match the versions used in minimap2/align
-    conda (params.enable_conda ? 'bioconda::minimap2=2.24' : null)
+    conda "bioconda::minimap2=2.24"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/minimap2:2.24--h7132678_1' :
         'quay.io/biocontainers/minimap2:2.24--h7132678_1' }"
diff --git a/modules/nf-core/miniprot/align/main.nf b/modules/nf-core/miniprot/align/main.nf
index 7d6eae26ebf..027dadf61f0 100644
--- a/modules/nf-core/miniprot/align/main.nf
+++ b/modules/nf-core/miniprot/align/main.nf
@@ -2,7 +2,7 @@ process MINIPROT_ALIGN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::miniprot=0.5" : null)
+    conda "bioconda::miniprot=0.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/miniprot:0.5--h7132678_0':
         'quay.io/biocontainers/miniprot:0.5--h7132678_0' }"
diff --git a/modules/nf-core/miniprot/index/main.nf b/modules/nf-core/miniprot/index/main.nf
index 9caa4c34849..1c342abfdc3 100644
--- a/modules/nf-core/miniprot/index/main.nf
+++ b/modules/nf-core/miniprot/index/main.nf
@@ -2,7 +2,7 @@ process MINIPROT_INDEX {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::miniprot=0.5" : null)
+    conda "bioconda::miniprot=0.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/miniprot:0.5--h7132678_0':
         'quay.io/biocontainers/miniprot:0.5--h7132678_0' }"
diff --git a/modules/nf-core/miranda/main.nf b/modules/nf-core/miranda/main.nf
index a050c4b621f..2f32f7885de 100644
--- a/modules/nf-core/miranda/main.nf
+++ b/modules/nf-core/miranda/main.nf
@@ -2,7 +2,7 @@ process MIRANDA {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::miranda=3.3a" : null)
+    conda "bioconda::miranda=3.3a"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/miranda:3.3a--h779adbc_3':
         'quay.io/biocontainers/miranda:3.3a--h779adbc_3' }"
diff --git a/modules/nf-core/mlst/main.nf b/modules/nf-core/mlst/main.nf
index ca86fba834f..608ef909947 100644
--- a/modules/nf-core/mlst/main.nf
+++ b/modules/nf-core/mlst/main.nf
@@ -2,7 +2,7 @@ process MLST {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::mlst=2.19.0" : null)
+    conda "bioconda::mlst=2.19.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mlst:2.19.0--hdfd78af_1' :
         'quay.io/biocontainers/mlst:2.19.0--hdfd78af_1' }"
diff --git a/modules/nf-core/mmseqs/createindex/main.nf b/modules/nf-core/mmseqs/createindex/main.nf
index 0e47fccc30f..33cd8135b46 100644
--- a/modules/nf-core/mmseqs/createindex/main.nf
+++ b/modules/nf-core/mmseqs/createindex/main.nf
@@ -2,7 +2,7 @@ process MMSEQS_CREATEINDEX {
     tag "$db"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::mmseqs2=14.7e284" : null)
+    conda "bioconda::mmseqs2=14.7e284"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mmseqs2:14.7e284--pl5321hf1761c0_0':
         'quay.io/biocontainers/mmseqs2:14.7e284--pl5321hf1761c0_0' }"
diff --git a/modules/nf-core/mmseqs/tsv2exprofiledb/main.nf b/modules/nf-core/mmseqs/tsv2exprofiledb/main.nf
index bcb8f729264..9e74f40e888 100644
--- a/modules/nf-core/mmseqs/tsv2exprofiledb/main.nf
+++ b/modules/nf-core/mmseqs/tsv2exprofiledb/main.nf
@@ -2,7 +2,7 @@ process MMSEQS_TSV2EXPROFILEDB {
     tag "$db"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::mmseqs2=14.7e284" : null)
+    conda "bioconda::mmseqs2=14.7e284"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mmseqs2:14.7e284--pl5321hf1761c0_0':
         'quay.io/biocontainers/mmseqs2:14.7e284--pl5321hf1761c0_0' }"
diff --git a/modules/nf-core/mobsuite/recon/main.nf b/modules/nf-core/mobsuite/recon/main.nf
index 9ca7e180364..b3cd9115a2f 100644
--- a/modules/nf-core/mobsuite/recon/main.nf
+++ b/modules/nf-core/mobsuite/recon/main.nf
@@ -2,7 +2,7 @@ process MOBSUITE_RECON {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::mob_suite=3.0.3" : null)
+    conda "bioconda::mob_suite=3.0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mob_suite%3A3.0.3--pyhdfd78af_0':
         'quay.io/biocontainers/mob_suite:3.0.3--pyhdfd78af_0' }"
diff --git a/modules/nf-core/mosdepth/main.nf b/modules/nf-core/mosdepth/main.nf
index d7e3c92904a..511d29ba479 100644
--- a/modules/nf-core/mosdepth/main.nf
+++ b/modules/nf-core/mosdepth/main.nf
@@ -2,7 +2,7 @@ process MOSDEPTH {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::mosdepth=0.3.3' : null)
+    conda "bioconda::mosdepth=0.3.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mosdepth:0.3.3--hdfd78af_1' :
         'quay.io/biocontainers/mosdepth:0.3.3--hdfd78af_1'}"
diff --git a/modules/nf-core/motus/downloaddb/main.nf b/modules/nf-core/motus/downloaddb/main.nf
index 128b9614f21..c2b32484f7f 100644
--- a/modules/nf-core/motus/downloaddb/main.nf
+++ b/modules/nf-core/motus/downloaddb/main.nf
@@ -1,7 +1,7 @@
 process MOTUS_DOWNLOADDB {
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::motus=3.0.3" : null)
+    conda "bioconda::motus=3.0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/motus:3.0.3--pyhdfd78af_0':
         'quay.io/biocontainers/motus:3.0.3--pyhdfd78af_0' }"
diff --git a/modules/nf-core/motus/merge/main.nf b/modules/nf-core/motus/merge/main.nf
index 5041cf0c392..23d2a49bb56 100644
--- a/modules/nf-core/motus/merge/main.nf
+++ b/modules/nf-core/motus/merge/main.nf
@@ -2,7 +2,7 @@ process MOTUS_MERGE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::motus=3.0.3" : null)
+    conda "bioconda::motus=3.0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/motus:3.0.3--pyhdfd78af_0':
         'quay.io/biocontainers/motus:3.0.3--pyhdfd78af_0' }"
diff --git a/modules/nf-core/motus/profile/main.nf b/modules/nf-core/motus/profile/main.nf
index 8a762500a64..1491c463a9e 100644
--- a/modules/nf-core/motus/profile/main.nf
+++ b/modules/nf-core/motus/profile/main.nf
@@ -2,7 +2,7 @@ process MOTUS_PROFILE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::motus=3.0.3" : null)
+    conda "bioconda::motus=3.0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/motus:3.0.3--pyhdfd78af_0':
         'quay.io/biocontainers/motus:3.0.3--pyhdfd78af_0' }"
diff --git a/modules/nf-core/msisensor/msi/main.nf b/modules/nf-core/msisensor/msi/main.nf
index 954c5bec398..5794f59024a 100644
--- a/modules/nf-core/msisensor/msi/main.nf
+++ b/modules/nf-core/msisensor/msi/main.nf
@@ -2,7 +2,7 @@ process MSISENSOR_MSI {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::msisensor=0.5" : null)
+    conda "bioconda::msisensor=0.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/msisensor:0.5--hb3646a4_2' :
         'quay.io/biocontainers/msisensor:0.5--hb3646a4_2' }"
diff --git a/modules/nf-core/msisensor/scan/main.nf b/modules/nf-core/msisensor/scan/main.nf
index 399513cec88..66c87ddde9e 100644
--- a/modules/nf-core/msisensor/scan/main.nf
+++ b/modules/nf-core/msisensor/scan/main.nf
@@ -2,7 +2,7 @@ process MSISENSOR_SCAN {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::msisensor=0.5" : null)
+    conda "bioconda::msisensor=0.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/msisensor:0.5--hb3646a4_2' :
         'quay.io/biocontainers/msisensor:0.5--hb3646a4_2' }"
diff --git a/modules/nf-core/msisensor2/msi/main.nf b/modules/nf-core/msisensor2/msi/main.nf
index b837b1192b6..f62c8e8d5ac 100644
--- a/modules/nf-core/msisensor2/msi/main.nf
+++ b/modules/nf-core/msisensor2/msi/main.nf
@@ -2,7 +2,7 @@ process MSISENSOR2_MSI {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::msisensor2=0.1" : null)
+    conda "bioconda::msisensor2=0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/msisensor2:0.1--hd03093a_0':
         'quay.io/biocontainers/msisensor2:0.1--hd03093a_0' }"
diff --git a/modules/nf-core/msisensor2/scan/main.nf b/modules/nf-core/msisensor2/scan/main.nf
index 03cebbdb997..9384b7cd464 100644
--- a/modules/nf-core/msisensor2/scan/main.nf
+++ b/modules/nf-core/msisensor2/scan/main.nf
@@ -2,7 +2,7 @@ process MSISENSOR2_SCAN {
     tag "$fasta"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::msisensor2=0.1" : null)
+    conda "bioconda::msisensor2=0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/msisensor2:0.1--hd03093a_0':
         'quay.io/biocontainers/msisensor2:0.1--hd03093a_0' }"
diff --git a/modules/nf-core/msisensorpro/msi_somatic/main.nf b/modules/nf-core/msisensorpro/msi_somatic/main.nf
index e2da70de7c6..0713aa4b27f 100644
--- a/modules/nf-core/msisensorpro/msi_somatic/main.nf
+++ b/modules/nf-core/msisensorpro/msi_somatic/main.nf
@@ -2,7 +2,7 @@ process MSISENSORPRO_MSI_SOMATIC {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::msisensor-pro=1.2.0" : null)
+    conda "bioconda::msisensor-pro=1.2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/msisensor-pro:1.2.0--hfc31af2_0' :
         'quay.io/biocontainers/msisensor-pro:1.2.0--hfc31af2_0' }"
diff --git a/modules/nf-core/msisensorpro/scan/main.nf b/modules/nf-core/msisensorpro/scan/main.nf
index 752606d620f..efeda36e4e2 100644
--- a/modules/nf-core/msisensorpro/scan/main.nf
+++ b/modules/nf-core/msisensorpro/scan/main.nf
@@ -2,7 +2,7 @@ process MSISENSORPRO_SCAN {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::msisensor-pro=1.2.0" : null)
+    conda "bioconda::msisensor-pro=1.2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/msisensor-pro:1.2.0--hfc31af2_0' :
         'quay.io/biocontainers/msisensor-pro:1.2.0--hfc31af2_0' }"
diff --git a/modules/nf-core/mtnucratio/main.nf b/modules/nf-core/mtnucratio/main.nf
index cf9f384a8d3..0b3db14df13 100644
--- a/modules/nf-core/mtnucratio/main.nf
+++ b/modules/nf-core/mtnucratio/main.nf
@@ -2,7 +2,7 @@ process MTNUCRATIO {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::mtnucratio=0.7" : null)
+    conda "bioconda::mtnucratio=0.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mtnucratio:0.7--hdfd78af_2' :
         'quay.io/biocontainers/mtnucratio:0.7--hdfd78af_2' }"
diff --git a/modules/nf-core/multiqc/main.nf b/modules/nf-core/multiqc/main.nf
index a8159a57bf0..68f66bea74a 100644
--- a/modules/nf-core/multiqc/main.nf
+++ b/modules/nf-core/multiqc/main.nf
@@ -1,7 +1,7 @@
 process MULTIQC {
     label 'process_single'
 
-    conda (params.enable_conda ? 'bioconda::multiqc=1.13' : null)
+    conda "bioconda::multiqc=1.13"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/multiqc:1.13--pyhdfd78af_0' :
         'quay.io/biocontainers/multiqc:1.13--pyhdfd78af_0' }"
diff --git a/modules/nf-core/multivcfanalyzer/main.nf b/modules/nf-core/multivcfanalyzer/main.nf
index 24e83335940..ced2afe5009 100644
--- a/modules/nf-core/multivcfanalyzer/main.nf
+++ b/modules/nf-core/multivcfanalyzer/main.nf
@@ -2,7 +2,7 @@ process MULTIVCFANALYZER {
     tag "$fasta"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::multivcfanalyzer=0.85.2" : null)
+    conda "bioconda::multivcfanalyzer=0.85.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/multivcfanalyzer:0.85.2--hdfd78af_1':
         'quay.io/biocontainers/multivcfanalyzer:0.85.2--hdfd78af_1' }"
diff --git a/modules/nf-core/mummer/main.nf b/modules/nf-core/mummer/main.nf
index 746abbb1250..9229f9d50c4 100644
--- a/modules/nf-core/mummer/main.nf
+++ b/modules/nf-core/mummer/main.nf
@@ -3,7 +3,7 @@ process MUMMER {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::mummer=3.23" : null)
+    conda "bioconda::mummer=3.23"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mummer:3.23--pl5262h1b792b2_12' :
         'quay.io/biocontainers/mummer:3.23--pl5262h1b792b2_12' }"
diff --git a/modules/nf-core/muscle/main.nf b/modules/nf-core/muscle/main.nf
index 50f3c3f47a9..8641eb2783d 100644
--- a/modules/nf-core/muscle/main.nf
+++ b/modules/nf-core/muscle/main.nf
@@ -2,7 +2,7 @@ process MUSCLE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::muscle=3.8.1551" : null)
+    conda "bioconda::muscle=3.8.1551"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/muscle:3.8.1551--h7d875b9_6' :
         'quay.io/biocontainers/muscle:3.8.1551--h7d875b9_6' }"
diff --git a/modules/nf-core/mykrobe/predict/main.nf b/modules/nf-core/mykrobe/predict/main.nf
index f5e2ccf271a..fa96ec87851 100644
--- a/modules/nf-core/mykrobe/predict/main.nf
+++ b/modules/nf-core/mykrobe/predict/main.nf
@@ -2,7 +2,7 @@ process MYKROBE_PREDICT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::mykrobe=0.11.0" : null)
+    conda "bioconda::mykrobe=0.11.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mykrobe:0.11.0--py39h2add14b_1':
         'quay.io/biocontainers/mykrobe:0.11.0--py39h2add14b_1' }"
diff --git a/modules/nf-core/nanolyse/main.nf b/modules/nf-core/nanolyse/main.nf
index 2b4f0928aae..52dc86b3c00 100644
--- a/modules/nf-core/nanolyse/main.nf
+++ b/modules/nf-core/nanolyse/main.nf
@@ -2,7 +2,7 @@ process NANOLYSE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::nanolyse=1.2.0" : null)
+    conda "bioconda::nanolyse=1.2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/nanolyse:1.2.0--py_0' :
         'quay.io/biocontainers/nanolyse:1.2.0--py_0' }"
diff --git a/modules/nf-core/nanomonsv/parse/main.nf b/modules/nf-core/nanomonsv/parse/main.nf
index aced387c81a..9716da816aa 100644
--- a/modules/nf-core/nanomonsv/parse/main.nf
+++ b/modules/nf-core/nanomonsv/parse/main.nf
@@ -2,7 +2,7 @@ process NANOMONSV_PARSE {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::nanomonsv=0.5.0" : null)
+    conda "bioconda::nanomonsv=0.5.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/nanomonsv:0.5.0--pyhdfd78af_0':
         'quay.io/biocontainers/nanomonsv:0.5.0--pyhdfd78af_0' }"
diff --git a/modules/nf-core/nanoplot/main.nf b/modules/nf-core/nanoplot/main.nf
index 6af267752b1..78cca7e70a2 100644
--- a/modules/nf-core/nanoplot/main.nf
+++ b/modules/nf-core/nanoplot/main.nf
@@ -2,7 +2,7 @@ process NANOPLOT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::nanoplot=1.40.0' : null)
+    conda "bioconda::nanoplot=1.40.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/nanoplot:1.40.0--pyhdfd78af_0' :
         'quay.io/biocontainers/nanoplot:1.40.0--pyhdfd78af_0' }"
diff --git a/modules/nf-core/ncbigenomedownload/main.nf b/modules/nf-core/ncbigenomedownload/main.nf
index 7bc15997589..f5909878e6c 100644
--- a/modules/nf-core/ncbigenomedownload/main.nf
+++ b/modules/nf-core/ncbigenomedownload/main.nf
@@ -2,7 +2,7 @@ process NCBIGENOMEDOWNLOAD {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::ncbi-genome-download=0.3.1" : null)
+    conda "bioconda::ncbi-genome-download=0.3.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ncbi-genome-download:0.3.1--pyh5e36f6f_0' :
         'quay.io/biocontainers/ncbi-genome-download:0.3.1--pyh5e36f6f_0' }"
diff --git a/modules/nf-core/nextclade/datasetget/main.nf b/modules/nf-core/nextclade/datasetget/main.nf
index a9f52c84f0f..290cab96e2a 100644
--- a/modules/nf-core/nextclade/datasetget/main.nf
+++ b/modules/nf-core/nextclade/datasetget/main.nf
@@ -2,7 +2,7 @@ process NEXTCLADE_DATASETGET {
     tag "$dataset"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::nextclade=2.2.0" : null)
+    conda "bioconda::nextclade=2.2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/nextclade:2.2.0--h9ee0642_0' :
         'quay.io/biocontainers/nextclade:2.2.0--h9ee0642_0' }"
diff --git a/modules/nf-core/nextclade/run/main.nf b/modules/nf-core/nextclade/run/main.nf
index 22f72781e04..7d7378d6a16 100644
--- a/modules/nf-core/nextclade/run/main.nf
+++ b/modules/nf-core/nextclade/run/main.nf
@@ -2,7 +2,7 @@ process NEXTCLADE_RUN {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::nextclade=2.2.0" : null)
+    conda "bioconda::nextclade=2.2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/nextclade:2.2.0--h9ee0642_0' :
         'quay.io/biocontainers/nextclade:2.2.0--h9ee0642_0' }"
diff --git a/modules/nf-core/nextgenmap/main.nf b/modules/nf-core/nextgenmap/main.nf
index ad6194202ec..854b0c15d2b 100644
--- a/modules/nf-core/nextgenmap/main.nf
+++ b/modules/nf-core/nextgenmap/main.nf
@@ -2,7 +2,7 @@ process NEXTGENMAP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::nextgenmap=0.5.5" : null)
+    conda "bioconda::nextgenmap=0.5.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/nextgenmap%3A0.5.5--hc9558a2_4' :
         'quay.io/biocontainers/nextgenmap:0.5.5--hc9558a2_4' }"
diff --git a/modules/nf-core/ngmaster/main.nf b/modules/nf-core/ngmaster/main.nf
index ef288e8f564..afc0ce01d64 100644
--- a/modules/nf-core/ngmaster/main.nf
+++ b/modules/nf-core/ngmaster/main.nf
@@ -2,7 +2,7 @@ process NGMASTER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::ngmaster=0.5.8" : null)
+    conda "bioconda::ngmaster=0.5.8"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ngmaster:0.5.8--pyhdfd78af_1' :
         'quay.io/biocontainers/ngmaster:0.5.8--pyhdfd78af_1' }"
diff --git a/modules/nf-core/ngscheckmate/ncm/main.nf b/modules/nf-core/ngscheckmate/ncm/main.nf
index 0898cee8352..c2351f8a7fa 100644
--- a/modules/nf-core/ngscheckmate/ncm/main.nf
+++ b/modules/nf-core/ngscheckmate/ncm/main.nf
@@ -1,7 +1,7 @@
 process NGSCHECKMATE_NCM {
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::ngscheckmate=1.0.0" : null)
+    conda "bioconda::ngscheckmate=1.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ngscheckmate:1.0.0--py27r41hdfd78af_3':
         'quay.io/biocontainers/ngscheckmate:1.0.0--py27r41hdfd78af_3' }"
diff --git a/modules/nf-core/nucmer/main.nf b/modules/nf-core/nucmer/main.nf
index 5b70abd9269..5e92f4ac108 100644
--- a/modules/nf-core/nucmer/main.nf
+++ b/modules/nf-core/nucmer/main.nf
@@ -2,7 +2,7 @@ process NUCMER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::mummer=3.23" : null)
+    conda "bioconda::mummer=3.23"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mummer:3.23--pl5262h1b792b2_12' :
         'quay.io/biocontainers/mummer:3.23--pl5262h1b792b2_12' }"
diff --git a/modules/nf-core/odgi/build/main.nf b/modules/nf-core/odgi/build/main.nf
index 7accd43c131..f8367425f67 100644
--- a/modules/nf-core/odgi/build/main.nf
+++ b/modules/nf-core/odgi/build/main.nf
@@ -2,7 +2,7 @@ process ODGI_BUILD {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::odgi=0.8.0" : null)
+    conda "bioconda::odgi=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/odgi:0.8.0--py310hc8f18ef_0':
         'quay.io/biocontainers/odgi:0.8.0--py310hc8f18ef_0' }"
diff --git a/modules/nf-core/odgi/draw/main.nf b/modules/nf-core/odgi/draw/main.nf
index 1601ed8bb31..f10e7378779 100644
--- a/modules/nf-core/odgi/draw/main.nf
+++ b/modules/nf-core/odgi/draw/main.nf
@@ -2,7 +2,7 @@ process ODGI_DRAW {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::odgi=0.8.0" : null)
+    conda "bioconda::odgi=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/odgi:0.8.0--py310hc8f18ef_0':
         'quay.io/biocontainers/odgi:0.8.0--py310hc8f18ef_0' }"
diff --git a/modules/nf-core/odgi/layout/main.nf b/modules/nf-core/odgi/layout/main.nf
index e21af5801dc..e0dc1848233 100644
--- a/modules/nf-core/odgi/layout/main.nf
+++ b/modules/nf-core/odgi/layout/main.nf
@@ -2,7 +2,7 @@ process ODGI_LAYOUT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::odgi=0.8.0" : null)
+    conda "bioconda::odgi=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/odgi:0.8.0--py310hc8f18ef_0':
         'quay.io/biocontainers/odgi:0.8.0--py310hc8f18ef_0' }"
diff --git a/modules/nf-core/odgi/sort/main.nf b/modules/nf-core/odgi/sort/main.nf
index 433c5a37f1f..34edcd105ed 100644
--- a/modules/nf-core/odgi/sort/main.nf
+++ b/modules/nf-core/odgi/sort/main.nf
@@ -2,7 +2,7 @@ process ODGI_SORT {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::odgi=0.8.0" : null)
+    conda "bioconda::odgi=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/odgi:0.8.0--py310hc8f18ef_0':
         'quay.io/biocontainers/odgi:0.8.0--py310hc8f18ef_0' }"
diff --git a/modules/nf-core/odgi/stats/main.nf b/modules/nf-core/odgi/stats/main.nf
index 54ae3f5c224..5519d37d8d8 100644
--- a/modules/nf-core/odgi/stats/main.nf
+++ b/modules/nf-core/odgi/stats/main.nf
@@ -2,7 +2,7 @@ process ODGI_STATS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::odgi=0.8.0" : null)
+    conda "bioconda::odgi=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/odgi:0.8.0--py310hc8f18ef_0':
         'quay.io/biocontainers/odgi:0.8.0--py310hc8f18ef_0' }"
diff --git a/modules/nf-core/odgi/unchop/main.nf b/modules/nf-core/odgi/unchop/main.nf
index eee12e9314f..57575007c20 100644
--- a/modules/nf-core/odgi/unchop/main.nf
+++ b/modules/nf-core/odgi/unchop/main.nf
@@ -2,7 +2,7 @@ process ODGI_UNCHOP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::odgi=0.8.0" : null)
+    conda "bioconda::odgi=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/odgi:0.8.0--py310hc8f18ef_0':
         'quay.io/biocontainers/odgi:0.8.0--py310hc8f18ef_0' }"
diff --git a/modules/nf-core/odgi/view/main.nf b/modules/nf-core/odgi/view/main.nf
index 49b40b16a45..9cb78b8f338 100644
--- a/modules/nf-core/odgi/view/main.nf
+++ b/modules/nf-core/odgi/view/main.nf
@@ -2,7 +2,7 @@ process ODGI_VIEW {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::odgi=0.8.0" : null)
+    conda "bioconda::odgi=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/odgi:0.8.0--py310hc8f18ef_0':
         'quay.io/biocontainers/odgi:0.8.0--py310hc8f18ef_0' }"
diff --git a/modules/nf-core/odgi/viz/main.nf b/modules/nf-core/odgi/viz/main.nf
index 08ec32884b9..c90fc0f72ed 100644
--- a/modules/nf-core/odgi/viz/main.nf
+++ b/modules/nf-core/odgi/viz/main.nf
@@ -2,7 +2,7 @@ process ODGI_VIZ {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::odgi=0.8.0" : null)
+    conda "bioconda::odgi=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/odgi:0.8.0--py39h2add14b_0':
         'quay.io/biocontainers/odgi:0.8.0--py310hc8f18ef_0' }"
diff --git a/modules/nf-core/oncocnv/main.nf b/modules/nf-core/oncocnv/main.nf
index 01eca26a1b1..a3aaeb37cf5 100644
--- a/modules/nf-core/oncocnv/main.nf
+++ b/modules/nf-core/oncocnv/main.nf
@@ -2,7 +2,7 @@ process ONCOCNV {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::oncocnv=7.0" : null)
+    conda "bioconda::oncocnv=7.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://containers.biocontainers.pro/s3/SingImgsRepo/oncocnv/v7.0_cv2/oncocnv_v7.0_cv2.sif':
         'registry.hub.docker.com/biocontainers/oncocnv:v7.0_cv2' }"
diff --git a/modules/nf-core/optitype/main.nf b/modules/nf-core/optitype/main.nf
index b6a3e2000bb..cbd22b1fa86 100644
--- a/modules/nf-core/optitype/main.nf
+++ b/modules/nf-core/optitype/main.nf
@@ -2,7 +2,7 @@ process OPTITYPE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::optitype=1.3.5" : null)
+    conda "bioconda::optitype=1.3.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/optitype:1.3.5--0' :
         'quay.io/biocontainers/optitype:1.3.5--0' }"
diff --git a/modules/nf-core/pairix/main.nf b/modules/nf-core/pairix/main.nf
index 0b8c63c60fb..a1e9e25e73c 100644
--- a/modules/nf-core/pairix/main.nf
+++ b/modules/nf-core/pairix/main.nf
@@ -2,7 +2,7 @@ process PAIRIX {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::pairix=0.3.7" : null)
+    conda "bioconda::pairix=0.3.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pairix:0.3.7--py36h30a8e3e_3' :
         'quay.io/biocontainers/pairix:0.3.7--py36h30a8e3e_3' }"
diff --git a/modules/nf-core/pairtools/dedup/main.nf b/modules/nf-core/pairtools/dedup/main.nf
index 2c171e7a638..d28fbd178c1 100644
--- a/modules/nf-core/pairtools/dedup/main.nf
+++ b/modules/nf-core/pairtools/dedup/main.nf
@@ -2,7 +2,7 @@ process PAIRTOOLS_DEDUP {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::pairtools=0.3.0" : null)
+    conda "bioconda::pairtools=0.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pairtools:0.3.0--py37hb9c2fc3_5' :
         'quay.io/biocontainers/pairtools:0.3.0--py37hb9c2fc3_5' }"
diff --git a/modules/nf-core/pairtools/flip/main.nf b/modules/nf-core/pairtools/flip/main.nf
index 4959c4eef25..e79aa37347d 100644
--- a/modules/nf-core/pairtools/flip/main.nf
+++ b/modules/nf-core/pairtools/flip/main.nf
@@ -2,7 +2,7 @@ process PAIRTOOLS_FLIP {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::pairtools=0.3.0" : null)
+    conda "bioconda::pairtools=0.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pairtools:0.3.0--py37hb9c2fc3_5' :
         'quay.io/biocontainers/pairtools:0.3.0--py37hb9c2fc3_5' }"
diff --git a/modules/nf-core/pairtools/parse/main.nf b/modules/nf-core/pairtools/parse/main.nf
index 190346b1353..8b1deb97ea7 100644
--- a/modules/nf-core/pairtools/parse/main.nf
+++ b/modules/nf-core/pairtools/parse/main.nf
@@ -2,7 +2,7 @@ process PAIRTOOLS_PARSE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::pairtools=0.3.0" : null)
+    conda "bioconda::pairtools=0.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pairtools:0.3.0--py37hb9c2fc3_5' :
         'quay.io/biocontainers/pairtools:0.3.0--py37hb9c2fc3_5' }"
diff --git a/modules/nf-core/pairtools/restrict/main.nf b/modules/nf-core/pairtools/restrict/main.nf
index 59e18648c8b..edfddbcb505 100644
--- a/modules/nf-core/pairtools/restrict/main.nf
+++ b/modules/nf-core/pairtools/restrict/main.nf
@@ -2,7 +2,7 @@ process PAIRTOOLS_RESTRICT {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::pairtools=0.3.0" : null)
+    conda "bioconda::pairtools=0.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pairtools:0.3.0--py37hb9c2fc3_5' :
         'quay.io/biocontainers/pairtools:0.3.0--py37hb9c2fc3_5' }"
diff --git a/modules/nf-core/pairtools/select/main.nf b/modules/nf-core/pairtools/select/main.nf
index 9d434884ed4..5699720d052 100644
--- a/modules/nf-core/pairtools/select/main.nf
+++ b/modules/nf-core/pairtools/select/main.nf
@@ -2,7 +2,7 @@ process PAIRTOOLS_SELECT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::pairtools=0.3.0" : null)
+    conda "bioconda::pairtools=0.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pairtools:0.3.0--py37hb9c2fc3_5' :
         'quay.io/biocontainers/pairtools:0.3.0--py37hb9c2fc3_5' }"
diff --git a/modules/nf-core/pairtools/sort/main.nf b/modules/nf-core/pairtools/sort/main.nf
index 15ed56d1a83..9107aa8a31d 100644
--- a/modules/nf-core/pairtools/sort/main.nf
+++ b/modules/nf-core/pairtools/sort/main.nf
@@ -2,7 +2,7 @@ process PAIRTOOLS_SORT {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::pairtools=0.3.0" : null)
+    conda "bioconda::pairtools=0.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pairtools:0.3.0--py37hb9c2fc3_5' :
         'quay.io/biocontainers/pairtools:0.3.0--py37hb9c2fc3_5' }"
diff --git a/modules/nf-core/panaroo/run/main.nf b/modules/nf-core/panaroo/run/main.nf
index d8be0c1e3bb..dc6ebcc316e 100644
--- a/modules/nf-core/panaroo/run/main.nf
+++ b/modules/nf-core/panaroo/run/main.nf
@@ -2,7 +2,7 @@ process PANAROO_RUN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::panaroo=1.2.9" : null)
+    conda "bioconda::panaroo=1.2.9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/panaroo:1.2.9--pyhdfd78af_0':
         'quay.io/biocontainers/panaroo:1.2.9--pyhdfd78af_0' }"
diff --git a/modules/nf-core/pangolin/main.nf b/modules/nf-core/pangolin/main.nf
index 6414b5d3657..8f2ecf26872 100644
--- a/modules/nf-core/pangolin/main.nf
+++ b/modules/nf-core/pangolin/main.nf
@@ -2,7 +2,7 @@ process PANGOLIN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::pangolin=4.1.1' : null)
+    conda "bioconda::pangolin=4.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pangolin:4.1.1--pyhdfd78af_0' :
         'quay.io/biocontainers/pangolin:4.1.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/paraclu/main.nf b/modules/nf-core/paraclu/main.nf
index dfc47d4810d..4965564a1fe 100644
--- a/modules/nf-core/paraclu/main.nf
+++ b/modules/nf-core/paraclu/main.nf
@@ -3,7 +3,7 @@ process PARACLU {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::paraclu=10" : null)
+    conda "bioconda::paraclu=10"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/paraclu:10--h9a82719_1' :
         'quay.io/biocontainers/paraclu:10--h9a82719_1' }"
diff --git a/modules/nf-core/pasty/main.nf b/modules/nf-core/pasty/main.nf
index 35aec31457d..9a4634e8e5c 100644
--- a/modules/nf-core/pasty/main.nf
+++ b/modules/nf-core/pasty/main.nf
@@ -2,7 +2,7 @@ process PASTY {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::pasty=1.0.0" : null)
+    conda "bioconda::pasty=1.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pasty:1.0.0--hdfd78af_0':
         'quay.io/biocontainers/pasty:1.0.0--hdfd78af_0' }"
diff --git a/modules/nf-core/pbbam/pbmerge/main.nf b/modules/nf-core/pbbam/pbmerge/main.nf
index edee5512d4e..2bf56e7e4e3 100644
--- a/modules/nf-core/pbbam/pbmerge/main.nf
+++ b/modules/nf-core/pbbam/pbmerge/main.nf
@@ -2,7 +2,7 @@ process PBBAM_PBMERGE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::pbbam=2.1.0" : null)
+    conda "bioconda::pbbam=2.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pbbam:2.1.0--h3f0f298_2' :
         'quay.io/biocontainers/pbbam:2.1.0--h3f0f298_2' }"
diff --git a/modules/nf-core/pbccs/main.nf b/modules/nf-core/pbccs/main.nf
index 88938ef6974..723d65b91b0 100644
--- a/modules/nf-core/pbccs/main.nf
+++ b/modules/nf-core/pbccs/main.nf
@@ -2,7 +2,7 @@ process PBCCS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::pbccs=6.4.0" : null)
+    conda "bioconda::pbccs=6.4.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pbccs:6.4.0--h9ee0642_0' :
         'quay.io/biocontainers/pbccs:6.4.0--h9ee0642_0' }"
diff --git a/modules/nf-core/pbptyper/main.nf b/modules/nf-core/pbptyper/main.nf
index 6d423cf22b3..458c5471393 100644
--- a/modules/nf-core/pbptyper/main.nf
+++ b/modules/nf-core/pbptyper/main.nf
@@ -2,7 +2,7 @@ process PBPTYPER {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::pbptyper=1.0.2" : null)
+    conda "bioconda::pbptyper=1.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pbptyper:1.0.2--hdfd78af_0':
         'quay.io/biocontainers/pbptyper:1.0.2--hdfd78af_0' }"
diff --git a/modules/nf-core/pear/main.nf b/modules/nf-core/pear/main.nf
index 7569d611acd..7e53dc97c45 100644
--- a/modules/nf-core/pear/main.nf
+++ b/modules/nf-core/pear/main.nf
@@ -2,7 +2,7 @@ process PEAR {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::pear=0.9.6" : null)
+    conda "bioconda::pear=0.9.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pear:0.9.6--h67092d7_8':
         'quay.io/biocontainers/pear:0.9.6--h67092d7_8' }"
diff --git a/modules/nf-core/peddy/main.nf b/modules/nf-core/peddy/main.nf
index 50cdc698349..03cbd02f391 100644
--- a/modules/nf-core/peddy/main.nf
+++ b/modules/nf-core/peddy/main.nf
@@ -2,7 +2,7 @@ process PEDDY {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::peddy=0.4.8" : null)
+    conda "bioconda::peddy=0.4.8"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/peddy:0.4.8--pyh5e36f6f_0' :
         'quay.io/biocontainers/peddy:0.4.8--pyh5e36f6f_0' }"
diff --git a/modules/nf-core/phantompeakqualtools/main.nf b/modules/nf-core/phantompeakqualtools/main.nf
index 43fca683627..27daac4ce56 100644
--- a/modules/nf-core/phantompeakqualtools/main.nf
+++ b/modules/nf-core/phantompeakqualtools/main.nf
@@ -3,7 +3,7 @@ process PHANTOMPEAKQUALTOOLS {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::phantompeakqualtools=1.2.2" : null)
+    conda "bioconda::phantompeakqualtools=1.2.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/phantompeakqualtools:1.2.2--0' :
         'quay.io/biocontainers/phantompeakqualtools:1.2.2--0' }"
diff --git a/modules/nf-core/phyloflash/main.nf b/modules/nf-core/phyloflash/main.nf
index 23c38d56cb6..0f1abda3e23 100644
--- a/modules/nf-core/phyloflash/main.nf
+++ b/modules/nf-core/phyloflash/main.nf
@@ -2,7 +2,7 @@ process PHYLOFLASH {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::phyloflash=3.4" : null)
+    conda "bioconda::phyloflash=3.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/phyloflash:3.4--hdfd78af_1' :
         'quay.io/biocontainers/phyloflash:3.4--hdfd78af_1' }"
diff --git a/modules/nf-core/picard/addorreplacereadgroups/main.nf b/modules/nf-core/picard/addorreplacereadgroups/main.nf
index a6debc91d04..01a97428a2c 100644
--- a/modules/nf-core/picard/addorreplacereadgroups/main.nf
+++ b/modules/nf-core/picard/addorreplacereadgroups/main.nf
@@ -2,7 +2,7 @@ process PICARD_ADDORREPLACEREADGROUPS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/bedtointervallist/main.nf b/modules/nf-core/picard/bedtointervallist/main.nf
index 1cb5aefeb61..605d9386def 100644
--- a/modules/nf-core/picard/bedtointervallist/main.nf
+++ b/modules/nf-core/picard/bedtointervallist/main.nf
@@ -2,7 +2,7 @@ process PICARD_BEDTOINTERVALLIST {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/cleansam/main.nf b/modules/nf-core/picard/cleansam/main.nf
index 36b86502156..f19d240f703 100644
--- a/modules/nf-core/picard/cleansam/main.nf
+++ b/modules/nf-core/picard/cleansam/main.nf
@@ -2,7 +2,7 @@ process PICARD_CLEANSAM {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/collecthsmetrics/main.nf b/modules/nf-core/picard/collecthsmetrics/main.nf
index 5a695652f36..ee8116ec04c 100644
--- a/modules/nf-core/picard/collecthsmetrics/main.nf
+++ b/modules/nf-core/picard/collecthsmetrics/main.nf
@@ -2,7 +2,7 @@ process PICARD_COLLECTHSMETRICS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/collectmultiplemetrics/main.nf b/modules/nf-core/picard/collectmultiplemetrics/main.nf
index fd0b4127771..73cdaf3a486 100644
--- a/modules/nf-core/picard/collectmultiplemetrics/main.nf
+++ b/modules/nf-core/picard/collectmultiplemetrics/main.nf
@@ -2,7 +2,7 @@ process PICARD_COLLECTMULTIPLEMETRICS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/collectwgsmetrics/main.nf b/modules/nf-core/picard/collectwgsmetrics/main.nf
index 555bd2c02b9..b767b99c208 100644
--- a/modules/nf-core/picard/collectwgsmetrics/main.nf
+++ b/modules/nf-core/picard/collectwgsmetrics/main.nf
@@ -2,7 +2,7 @@ process PICARD_COLLECTWGSMETRICS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4 r::r-base" : null)
+    conda "bioconda::picard=2.27.4 r::r-base"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/createsequencedictionary/main.nf b/modules/nf-core/picard/createsequencedictionary/main.nf
index 0976f049360..f53b29afd9b 100644
--- a/modules/nf-core/picard/createsequencedictionary/main.nf
+++ b/modules/nf-core/picard/createsequencedictionary/main.nf
@@ -2,7 +2,7 @@ process PICARD_CREATESEQUENCEDICTIONARY {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/crosscheckfingerprints/main.nf b/modules/nf-core/picard/crosscheckfingerprints/main.nf
index d4eef2f2118..d2e1042e088 100644
--- a/modules/nf-core/picard/crosscheckfingerprints/main.nf
+++ b/modules/nf-core/picard/crosscheckfingerprints/main.nf
@@ -2,7 +2,7 @@ process PICARD_CROSSCHECKFINGERPRINTS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/fastqtosam/main.nf b/modules/nf-core/picard/fastqtosam/main.nf
index 2feb274ca55..26933bd1e21 100644
--- a/modules/nf-core/picard/fastqtosam/main.nf
+++ b/modules/nf-core/picard/fastqtosam/main.nf
@@ -2,7 +2,7 @@ process PICARD_FASTQTOSAM {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/filtersamreads/main.nf b/modules/nf-core/picard/filtersamreads/main.nf
index fda978030f1..8c46e5d7dee 100644
--- a/modules/nf-core/picard/filtersamreads/main.nf
+++ b/modules/nf-core/picard/filtersamreads/main.nf
@@ -2,7 +2,7 @@ process PICARD_FILTERSAMREADS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/fixmateinformation/main.nf b/modules/nf-core/picard/fixmateinformation/main.nf
index eea9eca92ab..8af6e5c366b 100644
--- a/modules/nf-core/picard/fixmateinformation/main.nf
+++ b/modules/nf-core/picard/fixmateinformation/main.nf
@@ -2,7 +2,7 @@ process PICARD_FIXMATEINFORMATION {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/liftovervcf/main.nf b/modules/nf-core/picard/liftovervcf/main.nf
index d4f6be9588a..04336271b8c 100644
--- a/modules/nf-core/picard/liftovervcf/main.nf
+++ b/modules/nf-core/picard/liftovervcf/main.nf
@@ -2,7 +2,7 @@ process PICARD_LIFTOVERVCF {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/markduplicates/main.nf b/modules/nf-core/picard/markduplicates/main.nf
index d1f3aaa1e79..14800392889 100644
--- a/modules/nf-core/picard/markduplicates/main.nf
+++ b/modules/nf-core/picard/markduplicates/main.nf
@@ -2,7 +2,7 @@ process PICARD_MARKDUPLICATES {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/mergesamfiles/main.nf b/modules/nf-core/picard/mergesamfiles/main.nf
index cccf4d3d53f..6afda3b3768 100644
--- a/modules/nf-core/picard/mergesamfiles/main.nf
+++ b/modules/nf-core/picard/mergesamfiles/main.nf
@@ -2,7 +2,7 @@ process PICARD_MERGESAMFILES {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/renamesampleinvcf/main.nf b/modules/nf-core/picard/renamesampleinvcf/main.nf
index da492b0da53..5fadbd409b3 100644
--- a/modules/nf-core/picard/renamesampleinvcf/main.nf
+++ b/modules/nf-core/picard/renamesampleinvcf/main.nf
@@ -3,7 +3,7 @@ process PICARD_RENAMESAMPLEINVCF {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/sortsam/main.nf b/modules/nf-core/picard/sortsam/main.nf
index 759c2c3d9ef..d517e7a1837 100644
--- a/modules/nf-core/picard/sortsam/main.nf
+++ b/modules/nf-core/picard/sortsam/main.nf
@@ -2,7 +2,7 @@ process PICARD_SORTSAM {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/picard/sortvcf/main.nf b/modules/nf-core/picard/sortvcf/main.nf
index b57b39c62d0..d3a32a52d44 100644
--- a/modules/nf-core/picard/sortvcf/main.nf
+++ b/modules/nf-core/picard/sortvcf/main.nf
@@ -2,7 +2,7 @@ process PICARD_SORTVCF {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::picard=2.27.4" : null)
+    conda "bioconda::picard=2.27.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/picard:2.27.4--hdfd78af_0' :
         'quay.io/biocontainers/picard:2.27.4--hdfd78af_0' }"
diff --git a/modules/nf-core/pindel/pindel/main.nf b/modules/nf-core/pindel/pindel/main.nf
index 66f38d60cc9..f7de9be7744 100755
--- a/modules/nf-core/pindel/pindel/main.nf
+++ b/modules/nf-core/pindel/pindel/main.nf
@@ -2,7 +2,7 @@ process PINDEL_PINDEL {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::pindel=0.2.5b9" : null)
+    conda "bioconda::pindel=0.2.5b9"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pindel:0.2.5b9--h06e5f0a_6':
         'quay.io/biocontainers/pindel:0.2.5b9--h06e5f0a_6' }"
diff --git a/modules/nf-core/pints/caller/main.nf b/modules/nf-core/pints/caller/main.nf
index ddbbd8ae135..2efb78c4c11 100644
--- a/modules/nf-core/pints/caller/main.nf
+++ b/modules/nf-core/pints/caller/main.nf
@@ -2,7 +2,7 @@ process PINTS_CALLER {
     tag "$meta.id"
     label 'process_medium'
 
-    conda    (params.enable_conda ? "bioconda::pypints=1.1.8" : null)
+    conda "bioconda::pypints=1.1.8"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pypints:1.1.8--pyh7cba7a3_0' :
         'quay.io/biocontainers/pypints:1.1.8--pyh7cba7a3_0' }"
diff --git a/modules/nf-core/pirate/main.nf b/modules/nf-core/pirate/main.nf
index ebef5b37b4c..853b1a386d9 100644
--- a/modules/nf-core/pirate/main.nf
+++ b/modules/nf-core/pirate/main.nf
@@ -2,7 +2,7 @@ process PIRATE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::pirate=1.0.4 bioconda::perl-bioperl=1.7.2" : null)
+    conda "bioconda::pirate=1.0.4 bioconda::perl-bioperl=1.7.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pirate:1.0.4--hdfd78af_2' :
         'quay.io/biocontainers/pirate:1.0.4--hdfd78af_2' }"
diff --git a/modules/nf-core/plasmidfinder/main.nf b/modules/nf-core/plasmidfinder/main.nf
index 41a91dacf75..54b66327086 100644
--- a/modules/nf-core/plasmidfinder/main.nf
+++ b/modules/nf-core/plasmidfinder/main.nf
@@ -3,7 +3,7 @@ process PLASMIDFINDER {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::plasmidfinder=2.1.6=py310hdfd78af_1" : null)
+    conda "bioconda::plasmidfinder=2.1.6=py310hdfd78af_1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/plasmidfinder:2.1.6--py310hdfd78af_1':
         'quay.io/biocontainers/plasmidfinder:2.1.6--py310hdfd78af_1' }"
diff --git a/modules/nf-core/plasmidid/main.nf b/modules/nf-core/plasmidid/main.nf
index 7911d806899..ff7165b1689 100644
--- a/modules/nf-core/plasmidid/main.nf
+++ b/modules/nf-core/plasmidid/main.nf
@@ -2,7 +2,7 @@ process PLASMIDID {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::plasmidid=1.6.5' : null)
+    conda "bioconda::plasmidid=1.6.5"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/plasmidid:1.6.5--hdfd78af_0' :
         'quay.io/biocontainers/plasmidid:1.6.5--hdfd78af_0' }"
diff --git a/modules/nf-core/plink/extract/main.nf b/modules/nf-core/plink/extract/main.nf
index fa22b527f5a..07ea78a3618 100644
--- a/modules/nf-core/plink/extract/main.nf
+++ b/modules/nf-core/plink/extract/main.nf
@@ -2,7 +2,7 @@ process PLINK_EXTRACT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::plink=1.90b6.21" : null)
+    conda "bioconda::plink=1.90b6.21"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/plink:1.90b6.21--h779adbc_1' :
         'quay.io/biocontainers/plink:1.90b6.21--h779adbc_1' }"
diff --git a/modules/nf-core/plink/vcf/main.nf b/modules/nf-core/plink/vcf/main.nf
index 0a69a021f74..9e1ca0e7485 100644
--- a/modules/nf-core/plink/vcf/main.nf
+++ b/modules/nf-core/plink/vcf/main.nf
@@ -2,7 +2,7 @@ process PLINK_VCF {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::plink=1.90b6.21" : null)
+    conda "bioconda::plink=1.90b6.21"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/plink:1.90b6.21--h779adbc_1' :
         'quay.io/biocontainers/plink:1.90b6.21--h779adbc_1' }"
diff --git a/modules/nf-core/plink2/extract/main.nf b/modules/nf-core/plink2/extract/main.nf
index 15f9c0386d4..5c0902449b6 100644
--- a/modules/nf-core/plink2/extract/main.nf
+++ b/modules/nf-core/plink2/extract/main.nf
@@ -2,7 +2,7 @@ process PLINK2_EXTRACT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::plink2=2.00a2.3" : null)
+    conda "bioconda::plink2=2.00a2.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/plink2:2.00a2.3--h712d239_1' :
         'quay.io/biocontainers/plink2:2.00a2.3--h712d239_1' }"
diff --git a/modules/nf-core/plink2/score/main.nf b/modules/nf-core/plink2/score/main.nf
index 6f561322f29..51d8a4b5e5e 100644
--- a/modules/nf-core/plink2/score/main.nf
+++ b/modules/nf-core/plink2/score/main.nf
@@ -2,7 +2,7 @@ process PLINK2_SCORE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::plink2=2.00a2.3" : null)
+    conda "bioconda::plink2=2.00a2.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/plink2:2.00a2.3--h712d239_1' :
         'quay.io/biocontainers/plink2:2.00a2.3--h712d239_1' }"
diff --git a/modules/nf-core/plink2/vcf/main.nf b/modules/nf-core/plink2/vcf/main.nf
index 090851a8a26..52127495dd5 100644
--- a/modules/nf-core/plink2/vcf/main.nf
+++ b/modules/nf-core/plink2/vcf/main.nf
@@ -2,7 +2,7 @@ process PLINK2_VCF {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::plink2=2.00a2.3" : null)
+    conda "bioconda::plink2=2.00a2.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/plink2:2.00a2.3--h712d239_1' :
         'quay.io/biocontainers/plink2:2.00a2.3--h712d239_1' }"
diff --git a/modules/nf-core/pmdtools/filter/main.nf b/modules/nf-core/pmdtools/filter/main.nf
index 2d9d6eb3e9d..8802152e8e7 100644
--- a/modules/nf-core/pmdtools/filter/main.nf
+++ b/modules/nf-core/pmdtools/filter/main.nf
@@ -2,7 +2,7 @@ process PMDTOOLS_FILTER {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::pmdtools=0.60" : null)
+    conda "bioconda::pmdtools=0.60"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pmdtools:0.60--hdfd78af_5' :
         'quay.io/biocontainers/pmdtools:0.60--hdfd78af_5' }"
diff --git a/modules/nf-core/porechop/abi/main.nf b/modules/nf-core/porechop/abi/main.nf
index 3a89b4dbfbc..444624a1d6f 100644
--- a/modules/nf-core/porechop/abi/main.nf
+++ b/modules/nf-core/porechop/abi/main.nf
@@ -2,7 +2,7 @@ process PORECHOP_ABI {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::porechop_abi=0.5.0" : null)
+    conda "bioconda::porechop_abi=0.5.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/porechop_abi:0.5.0--py310h590eda1_0':
         'quay.io/biocontainers/porechop_abi:0.5.0--py310h590eda1_0' }"
diff --git a/modules/nf-core/porechop/porechop/main.nf b/modules/nf-core/porechop/porechop/main.nf
index f9464175b15..52679101941 100644
--- a/modules/nf-core/porechop/porechop/main.nf
+++ b/modules/nf-core/porechop/porechop/main.nf
@@ -2,7 +2,7 @@ process PORECHOP_PORECHOP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::porechop=0.2.4" : null)
+    conda "bioconda::porechop=0.2.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/porechop:0.2.4--py39h7cff6ad_2' :
         'quay.io/biocontainers/porechop:0.2.4--py39h7cff6ad_2' }"
diff --git a/modules/nf-core/preseq/ccurve/main.nf b/modules/nf-core/preseq/ccurve/main.nf
index 79ef66f55cd..cfc70b8391b 100644
--- a/modules/nf-core/preseq/ccurve/main.nf
+++ b/modules/nf-core/preseq/ccurve/main.nf
@@ -3,7 +3,7 @@ process PRESEQ_CCURVE {
     label 'process_single'
     label 'error_ignore'
 
-    conda (params.enable_conda ? "bioconda::preseq=3.1.2" : null)
+    conda "bioconda::preseq=3.1.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/preseq:3.1.2--h445547b_2':
         'quay.io/biocontainers/preseq:3.1.2--h445547b_2' }"
diff --git a/modules/nf-core/preseq/lcextrap/main.nf b/modules/nf-core/preseq/lcextrap/main.nf
index a98a922c01f..38275910b49 100644
--- a/modules/nf-core/preseq/lcextrap/main.nf
+++ b/modules/nf-core/preseq/lcextrap/main.nf
@@ -3,7 +3,7 @@ process PRESEQ_LCEXTRAP {
     label 'process_single'
     label 'error_ignore'
 
-    conda (params.enable_conda ? "bioconda::preseq=3.1.2" : null)
+    conda "bioconda::preseq=3.1.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/preseq:3.1.2--h445547b_2':
         'quay.io/biocontainers/preseq:3.1.2--h445547b_2' }"
diff --git a/modules/nf-core/pretextmap/main.nf b/modules/nf-core/pretextmap/main.nf
index 6dee03f7823..366b4c78b02 100644
--- a/modules/nf-core/pretextmap/main.nf
+++ b/modules/nf-core/pretextmap/main.nf
@@ -3,7 +3,7 @@ process PRETEXTMAP {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::pretextmap=0.1.9 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::pretextmap=0.1.9 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-f3591ce8609c7b3b33e5715333200aa5c163aa61:c6242a6c1a522137de7a9e9ff90779ede11cf5c5-0':
         'quay.io/biocontainers/mulled-v2-f3591ce8609c7b3b33e5715333200aa5c163aa61:c6242a6c1a522137de7a9e9ff90779ede11cf5c5-0' }"
diff --git a/modules/nf-core/pretextsnapshot/main.nf b/modules/nf-core/pretextsnapshot/main.nf
index 9ff77639983..a881fe0bdba 100644
--- a/modules/nf-core/pretextsnapshot/main.nf
+++ b/modules/nf-core/pretextsnapshot/main.nf
@@ -2,7 +2,7 @@ process PRETEXTSNAPSHOT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::pretextsnapshot=0.0.4" : null)
+    conda "bioconda::pretextsnapshot=0.0.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pretextsnapshot:0.0.4--h7d875b9_0':
         'quay.io/biocontainers/pretextsnapshot:0.0.4--h7d875b9_0' }"
diff --git a/modules/nf-core/prinseqplusplus/main.nf b/modules/nf-core/prinseqplusplus/main.nf
index ebd8c58c6ad..f6c1c5b0b9c 100644
--- a/modules/nf-core/prinseqplusplus/main.nf
+++ b/modules/nf-core/prinseqplusplus/main.nf
@@ -2,7 +2,7 @@ process PRINSEQPLUSPLUS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::prinseq-plus-plus=1.2.3" : null)
+    conda "bioconda::prinseq-plus-plus=1.2.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/prinseq-plus-plus:1.2.3--hc90279e_1':
         'quay.io/biocontainers/prinseq-plus-plus:1.2.3--hc90279e_1' }"
diff --git a/modules/nf-core/prodigal/main.nf b/modules/nf-core/prodigal/main.nf
index 924a579ca60..e5c2898433f 100644
--- a/modules/nf-core/prodigal/main.nf
+++ b/modules/nf-core/prodigal/main.nf
@@ -2,7 +2,7 @@ process PRODIGAL {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "prodigal=2.6.3 pigz=2.6" : null)
+    conda "bioconda::prodigal=2.6.3 conda-forge::pigz=2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-2e442ba7b07bfa102b9cf8fac6221263cd746ab8:57f05cfa73f769d6ed6d54144cb3aa2a6a6b17e0-0' :
         'quay.io/biocontainers/mulled-v2-2e442ba7b07bfa102b9cf8fac6221263cd746ab8:57f05cfa73f769d6ed6d54144cb3aa2a6a6b17e0-0' }"
diff --git a/modules/nf-core/prokka/main.nf b/modules/nf-core/prokka/main.nf
index df52d29a915..048d373fae8 100644
--- a/modules/nf-core/prokka/main.nf
+++ b/modules/nf-core/prokka/main.nf
@@ -2,7 +2,7 @@ process PROKKA {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::prokka=1.14.6" : null)
+    conda "bioconda::prokka=1.14.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/prokka%3A1.14.6--pl5321hdfd78af_4' :
         'quay.io/biocontainers/prokka:1.14.6--pl5321hdfd78af_4' }"
diff --git a/modules/nf-core/purgedups/calcuts/main.nf b/modules/nf-core/purgedups/calcuts/main.nf
index e6fe8aa0b51..d1f45896cf0 100644
--- a/modules/nf-core/purgedups/calcuts/main.nf
+++ b/modules/nf-core/purgedups/calcuts/main.nf
@@ -2,7 +2,7 @@ process PURGEDUPS_CALCUTS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::purge_dups=1.2.6" : null)
+    conda "bioconda::purge_dups=1.2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/purge_dups:1.2.6--h7132678_0':
         'quay.io/biocontainers/purge_dups:1.2.6--h7132678_0' }"
diff --git a/modules/nf-core/purgedups/getseqs/main.nf b/modules/nf-core/purgedups/getseqs/main.nf
index def265c320a..15c431585b9 100644
--- a/modules/nf-core/purgedups/getseqs/main.nf
+++ b/modules/nf-core/purgedups/getseqs/main.nf
@@ -2,7 +2,7 @@ process PURGEDUPS_GETSEQS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::purge_dups=1.2.6" : null)
+    conda "bioconda::purge_dups=1.2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/purge_dups:1.2.6--h7132678_0':
         'quay.io/biocontainers/purge_dups:1.2.6--h7132678_0' }"
diff --git a/modules/nf-core/purgedups/pbcstat/main.nf b/modules/nf-core/purgedups/pbcstat/main.nf
index 62caf375f92..88309988789 100644
--- a/modules/nf-core/purgedups/pbcstat/main.nf
+++ b/modules/nf-core/purgedups/pbcstat/main.nf
@@ -2,7 +2,7 @@ process PURGEDUPS_PBCSTAT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::purge_dups=1.2.6" : null)
+    conda "bioconda::purge_dups=1.2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/purge_dups:1.2.6--h7132678_0':
         'quay.io/biocontainers/purge_dups:1.2.6--h7132678_0' }"
diff --git a/modules/nf-core/purgedups/purgedups/main.nf b/modules/nf-core/purgedups/purgedups/main.nf
index b57977bbced..42ec83255b7 100644
--- a/modules/nf-core/purgedups/purgedups/main.nf
+++ b/modules/nf-core/purgedups/purgedups/main.nf
@@ -2,7 +2,7 @@ process PURGEDUPS_PURGEDUPS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::purge_dups=1.2.6" : null)
+    conda "bioconda::purge_dups=1.2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/purge_dups:1.2.6--h7132678_0':
         'quay.io/biocontainers/purge_dups:1.2.6--h7132678_0' }"
diff --git a/modules/nf-core/purgedups/splitfa/main.nf b/modules/nf-core/purgedups/splitfa/main.nf
index b7d73115dd9..4401ee14cd2 100644
--- a/modules/nf-core/purgedups/splitfa/main.nf
+++ b/modules/nf-core/purgedups/splitfa/main.nf
@@ -2,7 +2,7 @@ process PURGEDUPS_SPLITFA {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::purge_dups=1.2.6" : null)
+    conda "bioconda::purge_dups=1.2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/purge_dups:1.2.6--h7132678_0':
         'quay.io/biocontainers/purge_dups:1.2.6--h7132678_0' }"
diff --git a/modules/nf-core/pycoqc/main.nf b/modules/nf-core/pycoqc/main.nf
index a5e6fcb2023..62f3215bdd2 100644
--- a/modules/nf-core/pycoqc/main.nf
+++ b/modules/nf-core/pycoqc/main.nf
@@ -2,7 +2,7 @@ process PYCOQC {
     tag "$summary"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::pycoqc=2.5.2" : null)
+    conda "bioconda::pycoqc=2.5.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pycoqc:2.5.2--py_0' :
         'quay.io/biocontainers/pycoqc:2.5.2--py_0' }"
diff --git a/modules/nf-core/pydamage/analyze/main.nf b/modules/nf-core/pydamage/analyze/main.nf
index 3463b0e5791..5d6fc8176df 100644
--- a/modules/nf-core/pydamage/analyze/main.nf
+++ b/modules/nf-core/pydamage/analyze/main.nf
@@ -2,7 +2,7 @@ process PYDAMAGE_ANALYZE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::pydamage=0.70" : null)
+    conda "bioconda::pydamage=0.70"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pydamage:0.70--pyhdfd78af_0' :
         'quay.io/biocontainers/pydamage:0.70--pyhdfd78af_0' }"
diff --git a/modules/nf-core/pydamage/filter/main.nf b/modules/nf-core/pydamage/filter/main.nf
index c58d82f4124..71f11d8f381 100644
--- a/modules/nf-core/pydamage/filter/main.nf
+++ b/modules/nf-core/pydamage/filter/main.nf
@@ -2,7 +2,7 @@ process PYDAMAGE_FILTER {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::pydamage=0.70" : null)
+    conda "bioconda::pydamage=0.70"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/pydamage:0.70--pyhdfd78af_0' :
         'quay.io/biocontainers/pydamage:0.70--pyhdfd78af_0' }"
diff --git a/modules/nf-core/qcat/main.nf b/modules/nf-core/qcat/main.nf
index 4c75b00359e..77d98e3d4bc 100644
--- a/modules/nf-core/qcat/main.nf
+++ b/modules/nf-core/qcat/main.nf
@@ -2,7 +2,7 @@ process QCAT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::qcat=1.1.0" : null)
+    conda "bioconda::qcat=1.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/qcat:1.1.0--py_0' :
         'quay.io/biocontainers/qcat:1.1.0--py_0' }"
diff --git a/modules/nf-core/qualimap/bamqc/main.nf b/modules/nf-core/qualimap/bamqc/main.nf
index 3bfcb4c1f58..936471ba39c 100644
--- a/modules/nf-core/qualimap/bamqc/main.nf
+++ b/modules/nf-core/qualimap/bamqc/main.nf
@@ -2,7 +2,7 @@ process QUALIMAP_BAMQC {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::qualimap=2.2.2d" : null)
+    conda "bioconda::qualimap=2.2.2d"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/qualimap:2.2.2d--1' :
         'quay.io/biocontainers/qualimap:2.2.2d--1' }"
diff --git a/modules/nf-core/qualimap/bamqccram/main.nf b/modules/nf-core/qualimap/bamqccram/main.nf
index 1ce8cb15ee2..25520406b22 100644
--- a/modules/nf-core/qualimap/bamqccram/main.nf
+++ b/modules/nf-core/qualimap/bamqccram/main.nf
@@ -2,7 +2,7 @@ process QUALIMAP_BAMQCCRAM {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::qualimap=2.2.2d bioconda::samtools=1.16.1" : null)
+    conda "bioconda::qualimap=2.2.2d bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-d3934ca6bb4e61334891ffa2e9a4c87a530e3188:00d3c18496ddf07ea580fd00d1dd203cf31ab630-0' :
         'quay.io/biocontainers/mulled-v2-d3934ca6bb4e61334891ffa2e9a4c87a530e3188:00d3c18496ddf07ea580fd00d1dd203cf31ab630-0' }"
diff --git a/modules/nf-core/qualimap/rnaseq/main.nf b/modules/nf-core/qualimap/rnaseq/main.nf
index 38293d27f25..ad15ebc2abb 100644
--- a/modules/nf-core/qualimap/rnaseq/main.nf
+++ b/modules/nf-core/qualimap/rnaseq/main.nf
@@ -2,7 +2,7 @@ process QUALIMAP_RNASEQ {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::qualimap=2.2.2d" : null)
+    conda "bioconda::qualimap=2.2.2d"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/qualimap:2.2.2d--1' :
         'quay.io/biocontainers/qualimap:2.2.2d--1' }"
diff --git a/modules/nf-core/quast/main.nf b/modules/nf-core/quast/main.nf
index 5585491b1bc..a7f9a4c8d51 100644
--- a/modules/nf-core/quast/main.nf
+++ b/modules/nf-core/quast/main.nf
@@ -1,7 +1,7 @@
 process QUAST {
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::quast=5.2.0' : null)
+    conda "bioconda::quast=5.2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/quast:5.2.0--py39pl5321h2add14b_1' :
         'quay.io/biocontainers/quast:5.2.0--py39pl5321h2add14b_1' }"
diff --git a/modules/nf-core/racon/main.nf b/modules/nf-core/racon/main.nf
index 6f8448967f9..f8ed3691a0c 100644
--- a/modules/nf-core/racon/main.nf
+++ b/modules/nf-core/racon/main.nf
@@ -2,7 +2,7 @@ process RACON {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::racon=1.4.20" : null)
+    conda "bioconda::racon=1.4.20"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/racon:1.4.20--h9a82719_1' :
         'quay.io/biocontainers/racon:1.4.20--h9a82719_1' }"
diff --git a/modules/nf-core/rapidnj/main.nf b/modules/nf-core/rapidnj/main.nf
index 7a06335bdee..c46f6ef39f6 100644
--- a/modules/nf-core/rapidnj/main.nf
+++ b/modules/nf-core/rapidnj/main.nf
@@ -2,7 +2,7 @@ process RAPIDNJ {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::rapidnj=2.3.2 conda-forge::biopython=1.78" : null)
+    conda "bioconda::rapidnj=2.3.2 conda-forge::biopython=1.78"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-805c6e0f138f952f9c61cdd57c632a1a263ea990:3c52e4c8da6b3e4d69b9ca83fa4d366168898179-0' :
         'quay.io/biocontainers/mulled-v2-805c6e0f138f952f9c61cdd57c632a1a263ea990:3c52e4c8da6b3e4d69b9ca83fa4d366168898179-0' }"
diff --git a/modules/nf-core/rasusa/main.nf b/modules/nf-core/rasusa/main.nf
index 47c8ece6179..aa8019ffae7 100644
--- a/modules/nf-core/rasusa/main.nf
+++ b/modules/nf-core/rasusa/main.nf
@@ -2,7 +2,7 @@ process RASUSA {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::rasusa=0.3.0" : null)
+    conda "bioconda::rasusa=0.3.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rasusa:0.3.0--h779adbc_1' :
         'quay.io/biocontainers/rasusa:0.3.0--h779adbc_1' }"
diff --git a/modules/nf-core/raven/main.nf b/modules/nf-core/raven/main.nf
index 8bcf6bb1791..aa58e60e04d 100644
--- a/modules/nf-core/raven/main.nf
+++ b/modules/nf-core/raven/main.nf
@@ -2,7 +2,7 @@ process RAVEN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::raven-assembler=1.6.1" : null)
+    conda "bioconda::raven-assembler=1.6.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/raven-assembler:1.6.1--h2e03b76_0' :
         'quay.io/biocontainers/raven-assembler:1.6.1--h2e03b76_0' }"
diff --git a/modules/nf-core/raxmlng/main.nf b/modules/nf-core/raxmlng/main.nf
index e872a4e61ab..0b4f383cd13 100644
--- a/modules/nf-core/raxmlng/main.nf
+++ b/modules/nf-core/raxmlng/main.nf
@@ -1,7 +1,7 @@
 process RAXMLNG {
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::raxml-ng=1.0.3' : null)
+    conda "bioconda::raxml-ng=1.0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/raxml-ng:1.0.3--h32fcf60_0' :
         'quay.io/biocontainers/raxml-ng:1.0.3--h32fcf60_0' }"
diff --git a/modules/nf-core/rgi/main/main.nf b/modules/nf-core/rgi/main/main.nf
index eadb2ff83f4..ce41469137e 100644
--- a/modules/nf-core/rgi/main/main.nf
+++ b/modules/nf-core/rgi/main/main.nf
@@ -2,7 +2,7 @@ process RGI_MAIN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::rgi=5.2.1" : null)
+    conda "bioconda::rgi=5.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rgi:5.2.1--pyha8f3691_2':
         'quay.io/biocontainers/rgi:5.2.1--pyha8f3691_2' }"
diff --git a/modules/nf-core/rhocall/annotate/main.nf b/modules/nf-core/rhocall/annotate/main.nf
index 95d647b1b26..155a9d691c7 100644
--- a/modules/nf-core/rhocall/annotate/main.nf
+++ b/modules/nf-core/rhocall/annotate/main.nf
@@ -2,7 +2,7 @@ process RHOCALL_ANNOTATE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::rhocall=0.5.1" : null)
+    conda "bioconda::rhocall=0.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rhocall:0.5.1--py39hbf8eff0_0':
         'quay.io/biocontainers/rhocall:0.5.1--py39hbf8eff0_0' }"
diff --git a/modules/nf-core/rmarkdownnotebook/main.nf b/modules/nf-core/rmarkdownnotebook/main.nf
index 336b0af00f9..b6e55584ca5 100644
--- a/modules/nf-core/rmarkdownnotebook/main.nf
+++ b/modules/nf-core/rmarkdownnotebook/main.nf
@@ -7,7 +7,7 @@ process RMARKDOWNNOTEBOOK {
     //NB: You likely want to override this with a container containing all required
     //dependencies for your analysis. The container at least needs to contain the
     //yaml and rmarkdown R packages.
-    conda (params.enable_conda ? "r-base=4.1.0 r-rmarkdown=2.9 r-yaml=2.2.1" : null)
+    conda "conda-forge::r-base=4.1.0 conda-forge::r-rmarkdown=2.9 conda-forge::r-yaml=2.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-31ad840d814d356e5f98030a4ee308a16db64ec5:0e852a1e4063fdcbe3f254ac2c7469747a60e361-0' :
         'quay.io/biocontainers/mulled-v2-31ad840d814d356e5f98030a4ee308a16db64ec5:0e852a1e4063fdcbe3f254ac2c7469747a60e361-0' }"
diff --git a/modules/nf-core/roary/main.nf b/modules/nf-core/roary/main.nf
index fabb3234fdd..a6817ccf23f 100644
--- a/modules/nf-core/roary/main.nf
+++ b/modules/nf-core/roary/main.nf
@@ -2,7 +2,7 @@ process ROARY {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::roary=3.13.0" : null)
+    conda "bioconda::roary=3.13.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/roary:3.13.0--pl526h516909a_0' :
         'quay.io/biocontainers/roary:3.13.0--pl526h516909a_0' }"
diff --git a/modules/nf-core/rsem/calculateexpression/main.nf b/modules/nf-core/rsem/calculateexpression/main.nf
index dc0134cc39d..aa9de7bc3ff 100644
--- a/modules/nf-core/rsem/calculateexpression/main.nf
+++ b/modules/nf-core/rsem/calculateexpression/main.nf
@@ -2,7 +2,7 @@ process RSEM_CALCULATEEXPRESSION {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::rsem=1.3.3 bioconda::star=2.7.10a" : null)
+    conda "bioconda::rsem=1.3.3 bioconda::star=2.7.10a"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-cf0123ef83b3c38c13e3b0696a3f285d3f20f15b:64aad4a4e144878400649e71f42105311be7ed87-0' :
         'quay.io/biocontainers/mulled-v2-cf0123ef83b3c38c13e3b0696a3f285d3f20f15b:64aad4a4e144878400649e71f42105311be7ed87-0' }"
diff --git a/modules/nf-core/rsem/preparereference/main.nf b/modules/nf-core/rsem/preparereference/main.nf
index da11be451aa..25c037b33a0 100644
--- a/modules/nf-core/rsem/preparereference/main.nf
+++ b/modules/nf-core/rsem/preparereference/main.nf
@@ -2,7 +2,7 @@ process RSEM_PREPAREREFERENCE {
     tag "$fasta"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::rsem=1.3.3 bioconda::star=2.7.10a" : null)
+    conda "bioconda::rsem=1.3.3 bioconda::star=2.7.10a"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-cf0123ef83b3c38c13e3b0696a3f285d3f20f15b:64aad4a4e144878400649e71f42105311be7ed87-0' :
         'quay.io/biocontainers/mulled-v2-cf0123ef83b3c38c13e3b0696a3f285d3f20f15b:64aad4a4e144878400649e71f42105311be7ed87-0' }"
diff --git a/modules/nf-core/rseqc/bamstat/main.nf b/modules/nf-core/rseqc/bamstat/main.nf
index 958221fdeed..943053ebb85 100644
--- a/modules/nf-core/rseqc/bamstat/main.nf
+++ b/modules/nf-core/rseqc/bamstat/main.nf
@@ -2,7 +2,7 @@ process RSEQC_BAMSTAT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'" : null)
+    conda "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rseqc:3.0.1--py37h516909a_1' :
         'quay.io/biocontainers/rseqc:3.0.1--py37h516909a_1' }"
diff --git a/modules/nf-core/rseqc/inferexperiment/main.nf b/modules/nf-core/rseqc/inferexperiment/main.nf
index 23c1b688274..f054c4822f1 100644
--- a/modules/nf-core/rseqc/inferexperiment/main.nf
+++ b/modules/nf-core/rseqc/inferexperiment/main.nf
@@ -2,7 +2,7 @@ process RSEQC_INFEREXPERIMENT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'" : null)
+    conda "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rseqc:3.0.1--py37h516909a_1' :
         'quay.io/biocontainers/rseqc:3.0.1--py37h516909a_1' }"
diff --git a/modules/nf-core/rseqc/innerdistance/main.nf b/modules/nf-core/rseqc/innerdistance/main.nf
index b05661de175..3d11d2b3e25 100644
--- a/modules/nf-core/rseqc/innerdistance/main.nf
+++ b/modules/nf-core/rseqc/innerdistance/main.nf
@@ -2,7 +2,7 @@ process RSEQC_INNERDISTANCE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'" : null)
+    conda "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rseqc:3.0.1--py37h516909a_1' :
         'quay.io/biocontainers/rseqc:3.0.1--py37h516909a_1' }"
diff --git a/modules/nf-core/rseqc/junctionannotation/main.nf b/modules/nf-core/rseqc/junctionannotation/main.nf
index c3401dc51a5..bc049729353 100644
--- a/modules/nf-core/rseqc/junctionannotation/main.nf
+++ b/modules/nf-core/rseqc/junctionannotation/main.nf
@@ -2,7 +2,7 @@ process RSEQC_JUNCTIONANNOTATION {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'" : null)
+    conda "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rseqc:3.0.1--py37h516909a_1' :
         'quay.io/biocontainers/rseqc:3.0.1--py37h516909a_1' }"
diff --git a/modules/nf-core/rseqc/junctionsaturation/main.nf b/modules/nf-core/rseqc/junctionsaturation/main.nf
index 11b629040bc..1b56bd1a966 100644
--- a/modules/nf-core/rseqc/junctionsaturation/main.nf
+++ b/modules/nf-core/rseqc/junctionsaturation/main.nf
@@ -2,7 +2,7 @@ process RSEQC_JUNCTIONSATURATION {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'" : null)
+    conda "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rseqc:3.0.1--py37h516909a_1' :
         'quay.io/biocontainers/rseqc:3.0.1--py37h516909a_1' }"
diff --git a/modules/nf-core/rseqc/readdistribution/main.nf b/modules/nf-core/rseqc/readdistribution/main.nf
index 3198c5c6660..a8477a098be 100644
--- a/modules/nf-core/rseqc/readdistribution/main.nf
+++ b/modules/nf-core/rseqc/readdistribution/main.nf
@@ -2,7 +2,7 @@ process RSEQC_READDISTRIBUTION {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'" : null)
+    conda "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rseqc:3.0.1--py37h516909a_1' :
         'quay.io/biocontainers/rseqc:3.0.1--py37h516909a_1' }"
diff --git a/modules/nf-core/rseqc/readduplication/main.nf b/modules/nf-core/rseqc/readduplication/main.nf
index cb989a5f202..7457c280d5b 100644
--- a/modules/nf-core/rseqc/readduplication/main.nf
+++ b/modules/nf-core/rseqc/readduplication/main.nf
@@ -2,7 +2,7 @@ process RSEQC_READDUPLICATION {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'" : null)
+    conda "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rseqc:3.0.1--py37h516909a_1' :
         'quay.io/biocontainers/rseqc:3.0.1--py37h516909a_1' }"
diff --git a/modules/nf-core/rseqc/tin/main.nf b/modules/nf-core/rseqc/tin/main.nf
index 67493371b79..29627e94e2e 100644
--- a/modules/nf-core/rseqc/tin/main.nf
+++ b/modules/nf-core/rseqc/tin/main.nf
@@ -2,7 +2,7 @@ process RSEQC_TIN {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'" : null)
+    conda "bioconda::rseqc=3.0.1 'conda-forge::r-base>=3.5'"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rseqc:3.0.1--py37h516909a_1' :
         'quay.io/biocontainers/rseqc:3.0.1--py37h516909a_1' }"
diff --git a/modules/nf-core/rtgtools/pedfilter/main.nf b/modules/nf-core/rtgtools/pedfilter/main.nf
index 9045b5b871c..f73a663390e 100644
--- a/modules/nf-core/rtgtools/pedfilter/main.nf
+++ b/modules/nf-core/rtgtools/pedfilter/main.nf
@@ -2,7 +2,7 @@ process RTGTOOLS_PEDFILTER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::rtg-tools=3.12.1" : null)
+    conda "bioconda::rtg-tools=3.12.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rtg-tools:3.12.1--hdfd78af_0':
         'quay.io/biocontainers/rtg-tools:3.12.1--hdfd78af_0' }"
diff --git a/modules/nf-core/rtgtools/vcfeval/main.nf b/modules/nf-core/rtgtools/vcfeval/main.nf
index 27a488f70f4..d366342499f 100644
--- a/modules/nf-core/rtgtools/vcfeval/main.nf
+++ b/modules/nf-core/rtgtools/vcfeval/main.nf
@@ -2,7 +2,7 @@ process RTGTOOLS_VCFEVAL {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::rtg-tools=3.12.1" : null)
+    conda "bioconda::rtg-tools=3.12.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/rtg-tools:3.12.1--hdfd78af_0':
         'quay.io/biocontainers/rtg-tools:3.12.1--hdfd78af_0' }"
diff --git a/modules/nf-core/salmon/index/main.nf b/modules/nf-core/salmon/index/main.nf
index 737087f968e..cec2325d31f 100644
--- a/modules/nf-core/salmon/index/main.nf
+++ b/modules/nf-core/salmon/index/main.nf
@@ -2,7 +2,7 @@ process SALMON_INDEX {
     tag "$transcript_fasta"
     label "process_medium"
 
-    conda (params.enable_conda ? 'bioconda::salmon=1.5.2' : null)
+    conda "bioconda::salmon=1.5.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/salmon:1.5.2--h84f40af_0' :
         'quay.io/biocontainers/salmon:1.5.2--h84f40af_0' }"
diff --git a/modules/nf-core/salmon/quant/main.nf b/modules/nf-core/salmon/quant/main.nf
index bd4792c52e6..e371f481374 100644
--- a/modules/nf-core/salmon/quant/main.nf
+++ b/modules/nf-core/salmon/quant/main.nf
@@ -2,7 +2,7 @@ process SALMON_QUANT {
     tag "$meta.id"
     label "process_medium"
 
-    conda (params.enable_conda ? 'bioconda::salmon=1.5.2' : null)
+    conda "bioconda::salmon=1.5.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/salmon:1.5.2--h84f40af_0' :
         'quay.io/biocontainers/salmon:1.5.2--h84f40af_0' }"
diff --git a/modules/nf-core/salsa2/main.nf b/modules/nf-core/salsa2/main.nf
index 10ac2071fd1..cf5534472bc 100644
--- a/modules/nf-core/salsa2/main.nf
+++ b/modules/nf-core/salsa2/main.nf
@@ -3,7 +3,7 @@ process SALSA2 {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::salsa2=2.3" : null)
+    conda "bioconda::salsa2=2.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/salsa2:2.3--py27hee3b9ab_0':
         'quay.io/biocontainers/salsa2:2.3--py27hee3b9ab_0' }"
diff --git a/modules/nf-core/samblaster/main.nf b/modules/nf-core/samblaster/main.nf
index 64e498431e8..2177d81fd3d 100644
--- a/modules/nf-core/samblaster/main.nf
+++ b/modules/nf-core/samblaster/main.nf
@@ -2,7 +2,7 @@ process SAMBLASTER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samblaster=0.1.26 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samblaster=0.1.26 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-19fa9f1a5c3966b63a24166365e81da35738c5ab:cee56b506ceb753d4bbef7e05b81e1bfc25d937f-0' :
         'quay.io/biocontainers/mulled-v2-19fa9f1a5c3966b63a24166365e81da35738c5ab:cee56b506ceb753d4bbef7e05b81e1bfc25d937f-0' }"
diff --git a/modules/nf-core/samtools/ampliconclip/main.nf b/modules/nf-core/samtools/ampliconclip/main.nf
index 3c6adc7eeb3..2b659aee592 100644
--- a/modules/nf-core/samtools/ampliconclip/main.nf
+++ b/modules/nf-core/samtools/ampliconclip/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_AMPLICONCLIP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/bam2fq/main.nf b/modules/nf-core/samtools/bam2fq/main.nf
index a6bd59d93f2..0b06352533d 100644
--- a/modules/nf-core/samtools/bam2fq/main.nf
+++ b/modules/nf-core/samtools/bam2fq/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_BAM2FQ {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/calmd/main.nf b/modules/nf-core/samtools/calmd/main.nf
index f52cb7ad72d..c4baf8f11e7 100644
--- a/modules/nf-core/samtools/calmd/main.nf
+++ b/modules/nf-core/samtools/calmd/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_CALMD {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/collate/main.nf b/modules/nf-core/samtools/collate/main.nf
index 84c73250806..0e4ba5d6c13 100644
--- a/modules/nf-core/samtools/collate/main.nf
+++ b/modules/nf-core/samtools/collate/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_COLLATE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1':
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/collatefastq/main.nf b/modules/nf-core/samtools/collatefastq/main.nf
index 8d6b1fb730b..e464aee0b12 100644
--- a/modules/nf-core/samtools/collatefastq/main.nf
+++ b/modules/nf-core/samtools/collatefastq/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_COLLATEFASTQ {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/convert/main.nf b/modules/nf-core/samtools/convert/main.nf
index ab4833a45e8..7efebb8e51d 100644
--- a/modules/nf-core/samtools/convert/main.nf
+++ b/modules/nf-core/samtools/convert/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_CONVERT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/depth/main.nf b/modules/nf-core/samtools/depth/main.nf
index 3e6ae7a8eec..aeacf8016af 100644
--- a/modules/nf-core/samtools/depth/main.nf
+++ b/modules/nf-core/samtools/depth/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_DEPTH {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/dict/main.nf b/modules/nf-core/samtools/dict/main.nf
index 1b8a4f17830..a8c81ab4ea2 100644
--- a/modules/nf-core/samtools/dict/main.nf
+++ b/modules/nf-core/samtools/dict/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_DICT {
     tag "$fasta"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/faidx/main.nf b/modules/nf-core/samtools/faidx/main.nf
index 2830963e88c..ce6580d25da 100644
--- a/modules/nf-core/samtools/faidx/main.nf
+++ b/modules/nf-core/samtools/faidx/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_FAIDX {
     tag "$fasta"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/fasta/main.nf b/modules/nf-core/samtools/fasta/main.nf
index a27bf35af38..06bfd51d7e0 100644
--- a/modules/nf-core/samtools/fasta/main.nf
+++ b/modules/nf-core/samtools/fasta/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_FASTA {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/fastq/main.nf b/modules/nf-core/samtools/fastq/main.nf
index e38845f345e..356a1f4fbdc 100644
--- a/modules/nf-core/samtools/fastq/main.nf
+++ b/modules/nf-core/samtools/fastq/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_FASTQ {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/fixmate/main.nf b/modules/nf-core/samtools/fixmate/main.nf
index e27c21f48da..d53d8abd390 100644
--- a/modules/nf-core/samtools/fixmate/main.nf
+++ b/modules/nf-core/samtools/fixmate/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_FIXMATE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/flagstat/main.nf b/modules/nf-core/samtools/flagstat/main.nf
index 33ee499ab3f..2120cd7d3ad 100644
--- a/modules/nf-core/samtools/flagstat/main.nf
+++ b/modules/nf-core/samtools/flagstat/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_FLAGSTAT {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/getrg/main.nf b/modules/nf-core/samtools/getrg/main.nf
index e917fdb4bbe..1800a1363b9 100644
--- a/modules/nf-core/samtools/getrg/main.nf
+++ b/modules/nf-core/samtools/getrg/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_GETRG {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/idxstats/main.nf b/modules/nf-core/samtools/idxstats/main.nf
index b42f4408d34..a7b87d8b94c 100644
--- a/modules/nf-core/samtools/idxstats/main.nf
+++ b/modules/nf-core/samtools/idxstats/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_IDXSTATS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/index/main.nf b/modules/nf-core/samtools/index/main.nf
index 8577dc9df22..8b95687a96e 100644
--- a/modules/nf-core/samtools/index/main.nf
+++ b/modules/nf-core/samtools/index/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_INDEX {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/markdup/main.nf b/modules/nf-core/samtools/markdup/main.nf
index fe00bf6397c..dfed2010378 100644
--- a/modules/nf-core/samtools/markdup/main.nf
+++ b/modules/nf-core/samtools/markdup/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_MARKDUP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/merge/main.nf b/modules/nf-core/samtools/merge/main.nf
index 89dd072a9f7..a80ff3a227b 100644
--- a/modules/nf-core/samtools/merge/main.nf
+++ b/modules/nf-core/samtools/merge/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_MERGE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/mpileup/main.nf b/modules/nf-core/samtools/mpileup/main.nf
index 6c6b1bf61de..28092683ac9 100644
--- a/modules/nf-core/samtools/mpileup/main.nf
+++ b/modules/nf-core/samtools/mpileup/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_MPILEUP {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/sort/main.nf b/modules/nf-core/samtools/sort/main.nf
index ac43e67a32b..84c167cdd4e 100644
--- a/modules/nf-core/samtools/sort/main.nf
+++ b/modules/nf-core/samtools/sort/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_SORT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/stats/main.nf b/modules/nf-core/samtools/stats/main.nf
index 5d2fd68a04a..0a2a364015b 100644
--- a/modules/nf-core/samtools/stats/main.nf
+++ b/modules/nf-core/samtools/stats/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_STATS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/samtools/view/main.nf b/modules/nf-core/samtools/view/main.nf
index 314c8b729d1..729c85e54e7 100644
--- a/modules/nf-core/samtools/view/main.nf
+++ b/modules/nf-core/samtools/view/main.nf
@@ -2,7 +2,7 @@ process SAMTOOLS_VIEW {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::samtools=1.16.1" : null)
+    conda "bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/samtools:1.16.1--h6899075_1' :
         'quay.io/biocontainers/samtools:1.16.1--h6899075_1' }"
diff --git a/modules/nf-core/scoary/main.nf b/modules/nf-core/scoary/main.nf
index cfa58ab23e5..3c689d1699c 100644
--- a/modules/nf-core/scoary/main.nf
+++ b/modules/nf-core/scoary/main.nf
@@ -2,7 +2,7 @@ process SCOARY {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::scoary=1.6.16" : null)
+    conda "bioconda::scoary=1.6.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/scoary:1.6.16--py_2' :
         'quay.io/biocontainers/scoary:1.6.16--py_2' }"
diff --git a/modules/nf-core/scramble/clusteranalysis/main.nf b/modules/nf-core/scramble/clusteranalysis/main.nf
index cceceb052c2..00b71cf4b1d 100644
--- a/modules/nf-core/scramble/clusteranalysis/main.nf
+++ b/modules/nf-core/scramble/clusteranalysis/main.nf
@@ -2,7 +2,7 @@ process SCRAMBLE_CLUSTERANALYSIS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::scramble=1.0.1" : null)
+    conda "bioconda::scramble=1.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/scramble:1.0.1--h779adbc_1':
         'quay.io/biocontainers/scramble:1.0.1--h779adbc_1' }"
diff --git a/modules/nf-core/scramble/clusteridentifier/main.nf b/modules/nf-core/scramble/clusteridentifier/main.nf
index 1a90396ed67..4b20b9c54cf 100644
--- a/modules/nf-core/scramble/clusteridentifier/main.nf
+++ b/modules/nf-core/scramble/clusteridentifier/main.nf
@@ -2,7 +2,7 @@ process SCRAMBLE_CLUSTERIDENTIFIER {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::scramble=1.0.1" : null)
+    conda "bioconda::scramble=1.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/scramble:1.0.1--h779adbc_1':
         'quay.io/biocontainers/scramble:1.0.1--h779adbc_1' }"
diff --git a/modules/nf-core/seacr/callpeak/main.nf b/modules/nf-core/seacr/callpeak/main.nf
index f0311f2fa13..d5308cb2901 100644
--- a/modules/nf-core/seacr/callpeak/main.nf
+++ b/modules/nf-core/seacr/callpeak/main.nf
@@ -3,7 +3,7 @@ process SEACR_CALLPEAK {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::seacr=1.3 conda-forge::r-base=4.0.2 bioconda::bedtools=2.30.0" : null)
+    conda "bioconda::seacr=1.3 conda-forge::r-base=4.0.2 bioconda::bedtools=2.30.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-03bfeb32fe80910c231f630d4262b83677c8c0f4:f4bb19b68e66de27e4c64306f951d5ff11919931-0' :
         'quay.io/biocontainers/mulled-v2-03bfeb32fe80910c231f630d4262b83677c8c0f4:f4bb19b68e66de27e4c64306f951d5ff11919931-0' }"
diff --git a/modules/nf-core/segemehl/align/main.nf b/modules/nf-core/segemehl/align/main.nf
index 2253efac3ff..3e7fe4c7fdd 100644
--- a/modules/nf-core/segemehl/align/main.nf
+++ b/modules/nf-core/segemehl/align/main.nf
@@ -2,7 +2,7 @@ process SEGEMEHL_ALIGN {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::segemehl=0.3.4" : null)
+    conda "bioconda::segemehl=0.3.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/segemehl:0.3.4--hc2ea5fd_5':
         'quay.io/biocontainers/segemehl:0.3.4--hc2ea5fd_5' }"
diff --git a/modules/nf-core/segemehl/index/main.nf b/modules/nf-core/segemehl/index/main.nf
index 07cac955b52..f545c448715 100644
--- a/modules/nf-core/segemehl/index/main.nf
+++ b/modules/nf-core/segemehl/index/main.nf
@@ -2,7 +2,7 @@ process SEGEMEHL_INDEX {
     tag "$fasta"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::segemehl=0.3.4" : null)
+    conda "bioconda::segemehl=0.3.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/segemehl:0.3.4--hc2ea5fd_5':
         'quay.io/biocontainers/segemehl:0.3.4--hc2ea5fd_5' }"
diff --git a/modules/nf-core/seqkit/pair/main.nf b/modules/nf-core/seqkit/pair/main.nf
index 228b98bd791..1343f52d72c 100644
--- a/modules/nf-core/seqkit/pair/main.nf
+++ b/modules/nf-core/seqkit/pair/main.nf
@@ -2,7 +2,7 @@ process SEQKIT_PAIR {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::seqkit=2.1.0" : null)
+    conda "bioconda::seqkit=2.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seqkit:2.1.0--h9ee0642_0':
         'quay.io/biocontainers/seqkit:2.1.0--h9ee0642_0' }"
diff --git a/modules/nf-core/seqkit/replace/main.nf b/modules/nf-core/seqkit/replace/main.nf
index db189ef6f21..b78f4e47fed 100644
--- a/modules/nf-core/seqkit/replace/main.nf
+++ b/modules/nf-core/seqkit/replace/main.nf
@@ -2,7 +2,7 @@ process SEQKIT_REPLACE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::seqkit=2.1.0" : null)
+    conda "bioconda::seqkit=2.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seqkit:2.1.0--h9ee0642_0':
         'quay.io/biocontainers/seqkit:2.1.0--h9ee0642_0' }"
diff --git a/modules/nf-core/seqkit/split2/main.nf b/modules/nf-core/seqkit/split2/main.nf
index ff91d86bd95..8d040efda19 100644
--- a/modules/nf-core/seqkit/split2/main.nf
+++ b/modules/nf-core/seqkit/split2/main.nf
@@ -2,7 +2,7 @@ process SEQKIT_SPLIT2 {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::seqkit=2.1.0' : null)
+    conda "bioconda::seqkit=2.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seqkit:2.1.0--h9ee0642_0' :
         'quay.io/biocontainers/seqkit:2.1.0--h9ee0642_0' }"
diff --git a/modules/nf-core/seqkit/stats/main.nf b/modules/nf-core/seqkit/stats/main.nf
index 28ac77b71db..f7119f5a165 100644
--- a/modules/nf-core/seqkit/stats/main.nf
+++ b/modules/nf-core/seqkit/stats/main.nf
@@ -2,7 +2,7 @@ process SEQKIT_STATS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::seqkit=2.2.0" : null)
+    conda "bioconda::seqkit=2.2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seqkit:2.2.0--h9ee0642_0':
         'quay.io/biocontainers/seqkit:2.2.0--h9ee0642_0' }"
diff --git a/modules/nf-core/seqsero2/main.nf b/modules/nf-core/seqsero2/main.nf
index a5393cf63b3..dcd1f71a966 100644
--- a/modules/nf-core/seqsero2/main.nf
+++ b/modules/nf-core/seqsero2/main.nf
@@ -2,7 +2,7 @@ process SEQSERO2 {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::seqsero2=1.2.1" : null)
+    conda "bioconda::seqsero2=1.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seqsero2:1.2.1--py_0' :
         'quay.io/biocontainers/seqsero2:1.2.1--py_0' }"
diff --git a/modules/nf-core/seqtk/mergepe/main.nf b/modules/nf-core/seqtk/mergepe/main.nf
index 9c98ed2cba3..6ea17783362 100644
--- a/modules/nf-core/seqtk/mergepe/main.nf
+++ b/modules/nf-core/seqtk/mergepe/main.nf
@@ -2,7 +2,7 @@ process SEQTK_MERGEPE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::seqtk=1.3" : null)
+    conda "bioconda::seqtk=1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seqtk:1.3--h5bf99c6_3' :
         'quay.io/biocontainers/seqtk:1.3--h5bf99c6_3' }"
diff --git a/modules/nf-core/seqtk/rename/main.nf b/modules/nf-core/seqtk/rename/main.nf
index 75ed41ecc03..494422ee69d 100644
--- a/modules/nf-core/seqtk/rename/main.nf
+++ b/modules/nf-core/seqtk/rename/main.nf
@@ -2,7 +2,7 @@ process SEQTK_RENAME {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::seqtk=1.3" : null)
+    conda "bioconda::seqtk=1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seqtk:1.3--h5bf99c6_3' :
         'quay.io/biocontainers/seqtk:1.3--h5bf99c6_3' }"
diff --git a/modules/nf-core/seqtk/sample/main.nf b/modules/nf-core/seqtk/sample/main.nf
index dc016c78645..6df8aa915fc 100644
--- a/modules/nf-core/seqtk/sample/main.nf
+++ b/modules/nf-core/seqtk/sample/main.nf
@@ -2,7 +2,7 @@ process SEQTK_SAMPLE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::seqtk=1.3" : null)
+    conda "bioconda::seqtk=1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seqtk:1.3--h5bf99c6_3' :
         'quay.io/biocontainers/seqtk:1.3--h5bf99c6_3' }"
diff --git a/modules/nf-core/seqtk/seq/main.nf b/modules/nf-core/seqtk/seq/main.nf
index 42cc6a8763a..c1a26531aef 100644
--- a/modules/nf-core/seqtk/seq/main.nf
+++ b/modules/nf-core/seqtk/seq/main.nf
@@ -2,7 +2,7 @@ process SEQTK_SEQ {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::seqtk=1.3" : null)
+    conda "bioconda::seqtk=1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seqtk:1.3--h5bf99c6_3' :
         'quay.io/biocontainers/seqtk:1.3--h5bf99c6_3' }"
diff --git a/modules/nf-core/seqtk/subseq/main.nf b/modules/nf-core/seqtk/subseq/main.nf
index 8a9a5b8d50c..7869ead94d4 100644
--- a/modules/nf-core/seqtk/subseq/main.nf
+++ b/modules/nf-core/seqtk/subseq/main.nf
@@ -2,7 +2,7 @@ process SEQTK_SUBSEQ {
     tag "$sequences"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::seqtk=1.3" : null)
+    conda "bioconda::seqtk=1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seqtk:1.3--h5bf99c6_3' :
         'quay.io/biocontainers/seqtk:1.3--h5bf99c6_3' }"
diff --git a/modules/nf-core/sequencetools/pileupcaller/main.nf b/modules/nf-core/sequencetools/pileupcaller/main.nf
index 6f02c74f2da..5e482c0e419 100644
--- a/modules/nf-core/sequencetools/pileupcaller/main.nf
+++ b/modules/nf-core/sequencetools/pileupcaller/main.nf
@@ -2,7 +2,7 @@ process SEQUENCETOOLS_PILEUPCALLER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::sequencetools=1.5.2" : null)
+    conda "bioconda::sequencetools=1.5.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/sequencetools:1.5.2--hec16e2b_1':
         'quay.io/biocontainers/sequencetools:1.5.2--hec16e2b_1' }"
diff --git a/modules/nf-core/sequenzautils/bam2seqz/main.nf b/modules/nf-core/sequenzautils/bam2seqz/main.nf
index f150e0bd167..7fdbb2aa052 100644
--- a/modules/nf-core/sequenzautils/bam2seqz/main.nf
+++ b/modules/nf-core/sequenzautils/bam2seqz/main.nf
@@ -2,7 +2,7 @@ process SEQUENZAUTILS_BAM2SEQZ {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::sequenza-utils=3.0.0" : null)
+    conda "bioconda::sequenza-utils=3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/sequenza-utils:3.0.0--py38h6ed170a_2' :
         'quay.io/biocontainers/sequenza-utils:3.0.0--py38h6ed170a_2' }"
diff --git a/modules/nf-core/sequenzautils/gcwiggle/main.nf b/modules/nf-core/sequenzautils/gcwiggle/main.nf
index 23cc75b6f70..b34d122b762 100644
--- a/modules/nf-core/sequenzautils/gcwiggle/main.nf
+++ b/modules/nf-core/sequenzautils/gcwiggle/main.nf
@@ -2,7 +2,7 @@ process SEQUENZAUTILS_GCWIGGLE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::sequenza-utils=3.0.0" : null)
+    conda "bioconda::sequenza-utils=3.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/sequenza-utils:3.0.0--py38h6ed170a_2' :
         'quay.io/biocontainers/sequenza-utils:3.0.0--py38h6ed170a_2' }"
diff --git a/modules/nf-core/seqwish/induce/main.nf b/modules/nf-core/seqwish/induce/main.nf
index 405bfd33bb1..6fd94c96848 100644
--- a/modules/nf-core/seqwish/induce/main.nf
+++ b/modules/nf-core/seqwish/induce/main.nf
@@ -2,7 +2,7 @@ process SEQWISH_INDUCE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::seqwish=0.7.6' : null)
+    conda "bioconda::seqwish=0.7.6"
 
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seqwish:0.7.6--h5b5514e_1' :
diff --git a/modules/nf-core/seroba/run/main.nf b/modules/nf-core/seroba/run/main.nf
index 2179eb47a97..e7500b963e1 100644
--- a/modules/nf-core/seroba/run/main.nf
+++ b/modules/nf-core/seroba/run/main.nf
@@ -2,7 +2,7 @@ process SEROBA_RUN {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::seroba=1.0.2" : null)
+    conda "bioconda::seroba=1.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/seroba:1.0.2--pyhdfd78af_1':
         'quay.io/biocontainers/seroba:1.0.2--pyhdfd78af_1' }"
diff --git a/modules/nf-core/sexdeterrmine/main.nf b/modules/nf-core/sexdeterrmine/main.nf
index d22322a26fe..9eb7c0a2546 100644
--- a/modules/nf-core/sexdeterrmine/main.nf
+++ b/modules/nf-core/sexdeterrmine/main.nf
@@ -2,7 +2,7 @@ process SEXDETERRMINE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::sexdeterrmine=1.1.2" : null)
+    conda "bioconda::sexdeterrmine=1.1.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/sexdeterrmine:1.1.2--hdfd78af_1':
         'quay.io/biocontainers/sexdeterrmine:1.1.2--hdfd78af_1' }"
diff --git a/modules/nf-core/shasta/main.nf b/modules/nf-core/shasta/main.nf
index 3bdb0bf9154..84f7a5531b1 100644
--- a/modules/nf-core/shasta/main.nf
+++ b/modules/nf-core/shasta/main.nf
@@ -2,7 +2,7 @@ process SHASTA {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::shasta=0.8.0" : null)
+    conda "bioconda::shasta=0.8.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/shasta:0.8.0--h7d875b9_0':
         'quay.io/biocontainers/shasta:0.8.0--h7d875b9_0' }"
diff --git a/modules/nf-core/shasum/main.nf b/modules/nf-core/shasum/main.nf
index 0e288435ad1..800322163a3 100644
--- a/modules/nf-core/shasum/main.nf
+++ b/modules/nf-core/shasum/main.nf
@@ -2,7 +2,7 @@ process SHASUM {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "conda-forge::coreutils=9.1" : null)
+    conda "conda-forge::coreutils=9.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ubuntu:20.04' :
         'ubuntu:20.04' }"
diff --git a/modules/nf-core/shigatyper/main.nf b/modules/nf-core/shigatyper/main.nf
index 9d5c189a400..9d3e210e36e 100644
--- a/modules/nf-core/shigatyper/main.nf
+++ b/modules/nf-core/shigatyper/main.nf
@@ -2,7 +2,7 @@ process SHIGATYPER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::shigatyper=2.0.1" : null)
+    conda "bioconda::shigatyper=2.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/shigatyper%3A2.0.1--pyhdfd78af_0':
         'quay.io/biocontainers/shigatyper:2.0.1--pyhdfd78af_0' }"
diff --git a/modules/nf-core/shigeifinder/main.nf b/modules/nf-core/shigeifinder/main.nf
index e7b8fe45a83..1230d6201ef 100644
--- a/modules/nf-core/shigeifinder/main.nf
+++ b/modules/nf-core/shigeifinder/main.nf
@@ -2,7 +2,7 @@ process SHIGEIFINDER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::shigeifinder=1.3.2" : null)
+    conda "bioconda::shigeifinder=1.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/shigeifinder:1.3.2--pyhdfd78af_0':
         'quay.io/biocontainers/shigeifinder:1.3.2--pyhdfd78af_0' }"
diff --git a/modules/nf-core/shinyngs/app/main.nf b/modules/nf-core/shinyngs/app/main.nf
index b0bb4c755e9..2e361a1de36 100644
--- a/modules/nf-core/shinyngs/app/main.nf
+++ b/modules/nf-core/shinyngs/app/main.nf
@@ -14,7 +14,7 @@ process SHINYNGS_APP {
     //
     // Those values must then be set in your Nextflow secrets.
 
-    conda (params.enable_conda ? "bioconda::r-shinyngs=1.3.2" : null)
+    conda "bioconda::r-shinyngs=1.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/r-shinyngs%3A1.3.2--r41hdfd78af_0':
         'quay.io/biocontainers/r-shinyngs:1.3.2--r41hdfd78af_0' }"
diff --git a/modules/nf-core/shinyngs/staticdifferential/main.nf b/modules/nf-core/shinyngs/staticdifferential/main.nf
index c525484b30f..8ed56b6bb14 100644
--- a/modules/nf-core/shinyngs/staticdifferential/main.nf
+++ b/modules/nf-core/shinyngs/staticdifferential/main.nf
@@ -2,7 +2,7 @@ process SHINYNGS_STATICDIFFERENTIAL {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::r-shinyngs=1.4.2" : null)
+    conda "bioconda::r-shinyngs=1.4.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/r-shinyngs:1.4.2--r41hdfd78af_0':
         'quay.io/biocontainers/r-shinyngs:1.4.2--r41hdfd78af_0' }"
diff --git a/modules/nf-core/shinyngs/staticexploratory/main.nf b/modules/nf-core/shinyngs/staticexploratory/main.nf
index dcc945ee2bb..84151800285 100644
--- a/modules/nf-core/shinyngs/staticexploratory/main.nf
+++ b/modules/nf-core/shinyngs/staticexploratory/main.nf
@@ -2,7 +2,7 @@ process SHINYNGS_STATICEXPLORATORY {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::r-shinyngs=1.4.2" : null)
+    conda "bioconda::r-shinyngs=1.4.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/r-shinyngs%3A1.4.2--r41hdfd78af_0':
         'quay.io/biocontainers/r-shinyngs:1.4.2--r41hdfd78af_0' }"
diff --git a/modules/nf-core/shinyngs/validatefomcomponents/main.nf b/modules/nf-core/shinyngs/validatefomcomponents/main.nf
index e02fc651ce0..6c2cd122ea0 100644
--- a/modules/nf-core/shinyngs/validatefomcomponents/main.nf
+++ b/modules/nf-core/shinyngs/validatefomcomponents/main.nf
@@ -2,7 +2,7 @@ process SHINYNGS_VALIDATEFOMCOMPONENTS {
     tag "$sample"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::r-shinyngs=1.4.2" : null)
+    conda "bioconda::r-shinyngs=1.4.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/r-shinyngs:1.4.2--r41hdfd78af_0':
         'quay.io/biocontainers/r-shinyngs:1.4.2--r41hdfd78af_0' }"
diff --git a/modules/nf-core/shovill/main.nf b/modules/nf-core/shovill/main.nf
index 20a4548fa8c..af2bd984a46 100644
--- a/modules/nf-core/shovill/main.nf
+++ b/modules/nf-core/shovill/main.nf
@@ -2,7 +2,7 @@ process SHOVILL {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::shovill=1.1.0" : null)
+    conda "bioconda::shovill=1.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/shovill:1.1.0--0' :
         'quay.io/biocontainers/shovill:1.1.0--0' }"
diff --git a/modules/nf-core/sistr/main.nf b/modules/nf-core/sistr/main.nf
index 0301d0531ca..39ffd1d5d34 100644
--- a/modules/nf-core/sistr/main.nf
+++ b/modules/nf-core/sistr/main.nf
@@ -2,7 +2,7 @@ process SISTR {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::sistr_cmd=1.1.1" : null)
+    conda "bioconda::sistr_cmd=1.1.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/sistr_cmd:1.1.1--pyh864c0ab_2':
         'quay.io/biocontainers/sistr_cmd:1.1.1--pyh864c0ab_2' }"
diff --git a/modules/nf-core/slimfastq/main.nf b/modules/nf-core/slimfastq/main.nf
index 04abd27002e..257cb23775c 100644
--- a/modules/nf-core/slimfastq/main.nf
+++ b/modules/nf-core/slimfastq/main.nf
@@ -3,7 +3,7 @@ process SLIMFASTQ {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::slimfastq=2.04" : null)
+    conda "bioconda::slimfastq=2.04"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/slimfastq:2.04--h87f3376_2':
         'quay.io/biocontainers/slimfastq:2.04--h87f3376_2' }"
diff --git a/modules/nf-core/smoove/main.nf b/modules/nf-core/smoove/main.nf
index f6540b6bee0..ca9116d02b5 100644
--- a/modules/nf-core/smoove/main.nf
+++ b/modules/nf-core/smoove/main.nf
@@ -2,7 +2,7 @@ process SMOOVE {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::smoove=0.2.8" : null)
+    conda "bioconda::smoove=0.2.8"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/smoove:0.2.8--h9ee0642_1' :
         'quay.io/biocontainers/smoove:0.2.8--h9ee0642_1' }"
diff --git a/modules/nf-core/snapaligner/align/main.nf b/modules/nf-core/snapaligner/align/main.nf
index e362273e004..d2758a73b37 100644
--- a/modules/nf-core/snapaligner/align/main.nf
+++ b/modules/nf-core/snapaligner/align/main.nf
@@ -2,7 +2,7 @@ process SNAPALIGNER_ALIGN {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::snap-aligner=2.0.1" : null)
+    conda "bioconda::snap-aligner=2.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/snap-aligner:2.0.1--hd03093a_1':
         'quay.io/biocontainers/snap-aligner:2.0.1--hd03093a_1' }"
diff --git a/modules/nf-core/snapaligner/index/main.nf b/modules/nf-core/snapaligner/index/main.nf
index 212acf28db1..da1cf3cb360 100644
--- a/modules/nf-core/snapaligner/index/main.nf
+++ b/modules/nf-core/snapaligner/index/main.nf
@@ -2,7 +2,7 @@ process SNAPALIGNER_INDEX {
     tag "$fasta"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::snap-aligner=2.0.1" : null)
+    conda "bioconda::snap-aligner=2.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/snap-aligner:2.0.1--hd03093a_1':
         'quay.io/biocontainers/snap-aligner:2.0.1--hd03093a_1' }"
diff --git a/modules/nf-core/snippy/core/main.nf b/modules/nf-core/snippy/core/main.nf
index 29c8ab44954..c7310fec3ca 100644
--- a/modules/nf-core/snippy/core/main.nf
+++ b/modules/nf-core/snippy/core/main.nf
@@ -2,7 +2,7 @@ process SNIPPY_CORE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::snippy=4.6.0" : null)
+    conda "bioconda::snippy=4.6.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/snippy:4.6.0--hdfd78af_2':
         'quay.io/biocontainers/snippy:4.6.0--hdfd78af_1' }"
diff --git a/modules/nf-core/snippy/run/main.nf b/modules/nf-core/snippy/run/main.nf
index 5ecdbea88cb..c98abf11afd 100644
--- a/modules/nf-core/snippy/run/main.nf
+++ b/modules/nf-core/snippy/run/main.nf
@@ -2,7 +2,7 @@ process SNIPPY_RUN {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::snippy=4.6.0" : null)
+    conda "bioconda::snippy=4.6.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/snippy:4.6.0--hdfd78af_2' :
         'quay.io/biocontainers/snippy:4.6.0--hdfd78af_2' }"
diff --git a/modules/nf-core/snpdists/main.nf b/modules/nf-core/snpdists/main.nf
index 29febc6851a..fcd738b1e27 100644
--- a/modules/nf-core/snpdists/main.nf
+++ b/modules/nf-core/snpdists/main.nf
@@ -2,7 +2,7 @@ process SNPDISTS {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::snp-dists=0.8.2" : null)
+    conda "bioconda::snp-dists=0.8.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/snp-dists:0.8.2--h5bf99c6_0' :
         'quay.io/biocontainers/snp-dists:0.8.2--h5bf99c6_0' }"
diff --git a/modules/nf-core/snpeff/main.nf b/modules/nf-core/snpeff/main.nf
index ac615bf73e2..bab7050cf7e 100644
--- a/modules/nf-core/snpeff/main.nf
+++ b/modules/nf-core/snpeff/main.nf
@@ -2,7 +2,7 @@ process SNPEFF {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::snpeff=5.1" : null)
+    conda "bioconda::snpeff=5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/snpeff:5.1--hdfd78af_2' :
         'quay.io/biocontainers/snpeff:5.1--hdfd78af_2' }"
diff --git a/modules/nf-core/snpsift/split/main.nf b/modules/nf-core/snpsift/split/main.nf
index 8531b4cb7b9..28a46f7ea03 100644
--- a/modules/nf-core/snpsift/split/main.nf
+++ b/modules/nf-core/snpsift/split/main.nf
@@ -2,7 +2,7 @@ process SNPSIFT_SPLIT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::snpsift=4.3.1t" : null)
+    conda "bioconda::snpsift=4.3.1t"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/snpsift:4.3.1t--hdfd78af_3' :
         'quay.io/biocontainers/snpsift:4.3.1t--hdfd78af_3' }"
diff --git a/modules/nf-core/snpsites/main.nf b/modules/nf-core/snpsites/main.nf
index 33b1a2c9456..98609153077 100644
--- a/modules/nf-core/snpsites/main.nf
+++ b/modules/nf-core/snpsites/main.nf
@@ -1,7 +1,7 @@
 process SNPSITES {
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::snp-sites=2.5.1" : null)
+    conda "bioconda::snp-sites=2.5.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/snp-sites:2.5.1--hed695b0_0' :
         'quay.io/biocontainers/snp-sites:2.5.1--hed695b0_0' }"
diff --git a/modules/nf-core/somalier/extract/main.nf b/modules/nf-core/somalier/extract/main.nf
index 9e4239f1a09..03eb2e71f38 100644
--- a/modules/nf-core/somalier/extract/main.nf
+++ b/modules/nf-core/somalier/extract/main.nf
@@ -3,7 +3,7 @@ process SOMALIER_EXTRACT {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::somalier=0.2.15" : null)
+    conda "bioconda::somalier=0.2.15"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/somalier:0.2.15--h37c5b7d_0':
         'quay.io/biocontainers/somalier:0.2.15--h37c5b7d_0' }"
diff --git a/modules/nf-core/somalier/relate/main.nf b/modules/nf-core/somalier/relate/main.nf
index 72958bfc272..e5399fee259 100644
--- a/modules/nf-core/somalier/relate/main.nf
+++ b/modules/nf-core/somalier/relate/main.nf
@@ -3,7 +3,7 @@ process SOMALIER_RELATE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::somalier=0.2.15" : null)
+    conda "bioconda::somalier=0.2.15"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/somalier:0.2.15--h37c5b7d_0':
         'quay.io/biocontainers/somalier:0.2.15--h37c5b7d_0' }"
diff --git a/modules/nf-core/sortmerna/main.nf b/modules/nf-core/sortmerna/main.nf
index b792c921de8..171f6401b28 100644
--- a/modules/nf-core/sortmerna/main.nf
+++ b/modules/nf-core/sortmerna/main.nf
@@ -2,7 +2,7 @@ process SORTMERNA {
     tag "$meta.id"
     label "process_high"
 
-    conda (params.enable_conda ? "bioconda::sortmerna=4.3.4" : null)
+    conda "bioconda::sortmerna=4.3.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/sortmerna:4.3.4--h9ee0642_0' :
         'quay.io/biocontainers/sortmerna:4.3.4--h9ee0642_0' }"
diff --git a/modules/nf-core/sourmash/compare/main.nf b/modules/nf-core/sourmash/compare/main.nf
index d91158bdaf3..397436d2fe7 100644
--- a/modules/nf-core/sourmash/compare/main.nf
+++ b/modules/nf-core/sourmash/compare/main.nf
@@ -2,7 +2,7 @@ process SOURMASH_COMPARE {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::sourmash=4.5.0" : null)
+    conda "bioconda::sourmash=4.5.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/sourmash:4.5.0--hdfd78af_0':
         'quay.io/biocontainers/sourmash:4.5.0--hdfd78af_0' }"
diff --git a/modules/nf-core/sourmash/gather/main.nf b/modules/nf-core/sourmash/gather/main.nf
index 353069c137b..2a1b806a93a 100644
--- a/modules/nf-core/sourmash/gather/main.nf
+++ b/modules/nf-core/sourmash/gather/main.nf
@@ -2,7 +2,7 @@ process SOURMASH_GATHER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::sourmash=4.5.0" : null)
+    conda "bioconda::sourmash=4.5.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/sourmash:4.5.0--hdfd78af_0':
         'quay.io/biocontainers/sourmash:4.5.0--hdfd78af_0' }"
diff --git a/modules/nf-core/sourmash/sketch/main.nf b/modules/nf-core/sourmash/sketch/main.nf
index 5c33a37d420..2f85643196b 100644
--- a/modules/nf-core/sourmash/sketch/main.nf
+++ b/modules/nf-core/sourmash/sketch/main.nf
@@ -2,7 +2,7 @@ process SOURMASH_SKETCH {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::sourmash=4.5.0" : null)
+    conda "bioconda::sourmash=4.5.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/sourmash:4.5.0--hdfd78af_0':
         'quay.io/biocontainers/sourmash:4.5.0--hdfd78af_0' }"
diff --git a/modules/nf-core/spades/main.nf b/modules/nf-core/spades/main.nf
index 1c4bbee4bb2..a7ee54f44f9 100644
--- a/modules/nf-core/spades/main.nf
+++ b/modules/nf-core/spades/main.nf
@@ -2,7 +2,7 @@ process SPADES {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::spades=3.15.4' : null)
+    conda "bioconda::spades=3.15.4"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/spades:3.15.4--h95f258a_0' :
         'quay.io/biocontainers/spades:3.15.4--h95f258a_0' }"
diff --git a/modules/nf-core/spatyper/main.nf b/modules/nf-core/spatyper/main.nf
index 2a116f093c5..a7dd49e8c46 100644
--- a/modules/nf-core/spatyper/main.nf
+++ b/modules/nf-core/spatyper/main.nf
@@ -2,7 +2,7 @@ process SPATYPER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::spatyper=0.3.3" : null)
+    conda "bioconda::spatyper=0.3.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/spatyper:0.3.3--pyhdfd78af_3' :
         'quay.io/biocontainers/spatyper:0.3.3--pyhdfd78af_3' }"
diff --git a/modules/nf-core/sratools/fasterqdump/main.nf b/modules/nf-core/sratools/fasterqdump/main.nf
index 1ffb21f0c99..ca5ee7636d3 100644
--- a/modules/nf-core/sratools/fasterqdump/main.nf
+++ b/modules/nf-core/sratools/fasterqdump/main.nf
@@ -2,7 +2,7 @@ process SRATOOLS_FASTERQDUMP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::sra-tools=2.11.0 conda-forge::pigz=2.6' : null)
+    conda "bioconda::sra-tools=2.11.0 conda-forge::pigz=2.6"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-5f89fe0cd045cb1d615630b9261a1d17943a9b6a:6a9ff0e76ec016c3d0d27e0c0d362339f2d787e6-0' :
         'quay.io/biocontainers/mulled-v2-5f89fe0cd045cb1d615630b9261a1d17943a9b6a:6a9ff0e76ec016c3d0d27e0c0d362339f2d787e6-0' }"
diff --git a/modules/nf-core/sratools/prefetch/main.nf b/modules/nf-core/sratools/prefetch/main.nf
index 3426ae1262a..57e8a3c94b4 100644
--- a/modules/nf-core/sratools/prefetch/main.nf
+++ b/modules/nf-core/sratools/prefetch/main.nf
@@ -2,7 +2,7 @@ process SRATOOLS_PREFETCH {
     tag "$id"
     label 'process_low'
 
-    conda (params.enable_conda ? 'bioconda::sra-tools=2.11.0' : null)
+    conda "bioconda::sra-tools=2.11.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/sra-tools:2.11.0--pl5321ha49a11a_3' :
         'quay.io/biocontainers/sra-tools:2.11.0--pl5321ha49a11a_3' }"
diff --git a/modules/nf-core/srst2/srst2/main.nf b/modules/nf-core/srst2/srst2/main.nf
index e8a91716af1..ccd7b3f7734 100644
--- a/modules/nf-core/srst2/srst2/main.nf
+++ b/modules/nf-core/srst2/srst2/main.nf
@@ -2,7 +2,7 @@ process SRST2_SRST2 {
     tag "${meta.id}"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::srst2=0.2.0" : null)
+    conda "bioconda::srst2=0.2.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/srst2%3A0.2.0--py27_2':
         'quay.io/biocontainers/srst2:0.2.0--py27_2'}"
diff --git a/modules/nf-core/ssuissero/main.nf b/modules/nf-core/ssuissero/main.nf
index 4e169878c1d..0d7bb2c11a9 100644
--- a/modules/nf-core/ssuissero/main.nf
+++ b/modules/nf-core/ssuissero/main.nf
@@ -3,7 +3,7 @@ process SSUISSERO {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::ssuissero=1.0.1" : null)
+    conda "bioconda::ssuissero=1.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ssuissero%3A1.0.1--hdfd78af_0':
         'quay.io/biocontainers/ssuissero:1.0.1--hdfd78af_0' }"
diff --git a/modules/nf-core/stadeniolib/scramble/main.nf b/modules/nf-core/stadeniolib/scramble/main.nf
index e24fb2cb166..2534e0a1f30 100644
--- a/modules/nf-core/stadeniolib/scramble/main.nf
+++ b/modules/nf-core/stadeniolib/scramble/main.nf
@@ -2,7 +2,7 @@ process STADENIOLIB_SCRAMBLE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::staden_io_lib=1.14.14" : null)
+    conda "bioconda::staden_io_lib=1.14.14"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/staden_io_lib:1.14.14--h0d9da7e_3' :
         'quay.io/biocontainers/staden_io_lib:1.14.14--h0d9da7e_3' }"
diff --git a/modules/nf-core/staphopiasccmec/main.nf b/modules/nf-core/staphopiasccmec/main.nf
index dd173c2fb7e..ba59592375c 100644
--- a/modules/nf-core/staphopiasccmec/main.nf
+++ b/modules/nf-core/staphopiasccmec/main.nf
@@ -2,7 +2,7 @@ process STAPHOPIASCCMEC {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::staphopia-sccmec=1.0.0" : null)
+    conda "bioconda::staphopia-sccmec=1.0.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/staphopia-sccmec:1.0.0--hdfd78af_0' :
         'quay.io/biocontainers/staphopia-sccmec:1.0.0--hdfd78af_0' }"
diff --git a/modules/nf-core/star/align/main.nf b/modules/nf-core/star/align/main.nf
index 8b0f9d89e15..0e3bd71332c 100644
--- a/modules/nf-core/star/align/main.nf
+++ b/modules/nf-core/star/align/main.nf
@@ -2,7 +2,7 @@ process STAR_ALIGN {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::star=2.7.10a bioconda::samtools=1.16.1 conda-forge::gawk=5.1.0" : null)
+    conda "bioconda::star=2.7.10a bioconda::samtools=1.16.1 conda-forge::gawk=5.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-1fa26d1ce03c295fe2fdcf85831a92fbcbd7e8c2:1df389393721fc66f3fd8778ad938ac711951107-0' :
         'quay.io/biocontainers/mulled-v2-1fa26d1ce03c295fe2fdcf85831a92fbcbd7e8c2:1df389393721fc66f3fd8778ad938ac711951107-0' }"
diff --git a/modules/nf-core/star/genomegenerate/main.nf b/modules/nf-core/star/genomegenerate/main.nf
index 0fe88cbfce3..91462489fb9 100644
--- a/modules/nf-core/star/genomegenerate/main.nf
+++ b/modules/nf-core/star/genomegenerate/main.nf
@@ -2,7 +2,7 @@ process STAR_GENOMEGENERATE {
     tag "$fasta"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::star=2.7.10a bioconda::samtools=1.16.1 conda-forge::gawk=5.1.0" : null)
+    conda "bioconda::star=2.7.10a bioconda::samtools=1.16.1 conda-forge::gawk=5.1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-1fa26d1ce03c295fe2fdcf85831a92fbcbd7e8c2:1df389393721fc66f3fd8778ad938ac711951107-0' :
         'quay.io/biocontainers/mulled-v2-1fa26d1ce03c295fe2fdcf85831a92fbcbd7e8c2:1df389393721fc66f3fd8778ad938ac711951107-0' }"
diff --git a/modules/nf-core/stranger/main.nf b/modules/nf-core/stranger/main.nf
index ddfa0070d6a..582e389ec65 100644
--- a/modules/nf-core/stranger/main.nf
+++ b/modules/nf-core/stranger/main.nf
@@ -2,7 +2,7 @@ process STRANGER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::stranger=0.8.1" : null)
+    conda "bioconda::stranger=0.8.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/stranger:0.8.1--pyh5e36f6f_0':
         'quay.io/biocontainers/stranger:0.8.1--pyh5e36f6f_0' }"
diff --git a/modules/nf-core/strelka/germline/main.nf b/modules/nf-core/strelka/germline/main.nf
index 1f59bee157a..5b837f6393a 100644
--- a/modules/nf-core/strelka/germline/main.nf
+++ b/modules/nf-core/strelka/germline/main.nf
@@ -2,7 +2,7 @@ process STRELKA_GERMLINE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::strelka=2.9.10" : null)
+    conda "bioconda::strelka=2.9.10"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/strelka:2.9.10--h9ee0642_1' :
         'quay.io/biocontainers/strelka:2.9.10--h9ee0642_1' }"
diff --git a/modules/nf-core/strelka/somatic/main.nf b/modules/nf-core/strelka/somatic/main.nf
index 08b298a4631..74c9c443b63 100644
--- a/modules/nf-core/strelka/somatic/main.nf
+++ b/modules/nf-core/strelka/somatic/main.nf
@@ -2,7 +2,7 @@ process STRELKA_SOMATIC {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::strelka=2.9.10" : null)
+    conda "bioconda::strelka=2.9.10"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/strelka:2.9.10--h9ee0642_1' :
         'quay.io/biocontainers/strelka:2.9.10--h9ee0642_1' }"
diff --git a/modules/nf-core/stringtie/merge/main.nf b/modules/nf-core/stringtie/merge/main.nf
index 4cdaafe202a..f1635afcb14 100644
--- a/modules/nf-core/stringtie/merge/main.nf
+++ b/modules/nf-core/stringtie/merge/main.nf
@@ -2,7 +2,7 @@ process STRINGTIE_MERGE {
     label 'process_medium'
 
     // Note: 2.7X indices incompatible with AWS iGenomes.
-    conda     (params.enable_conda ? "bioconda::stringtie=2.2.1" : null)
+    conda "bioconda::stringtie=2.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/stringtie:2.2.1--hecb563c_2' :
         'quay.io/biocontainers/stringtie:2.2.1--hecb563c_2' }"
diff --git a/modules/nf-core/stringtie/stringtie/main.nf b/modules/nf-core/stringtie/stringtie/main.nf
index b403edee6aa..2d5b035f7a7 100644
--- a/modules/nf-core/stringtie/stringtie/main.nf
+++ b/modules/nf-core/stringtie/stringtie/main.nf
@@ -2,7 +2,7 @@ process STRINGTIE_STRINGTIE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::stringtie=2.2.1" : null)
+    conda "bioconda::stringtie=2.2.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/stringtie:2.2.1--hecb563c_2' :
         'quay.io/biocontainers/stringtie:2.2.1--hecb563c_2' }"
diff --git a/modules/nf-core/subread/featurecounts/main.nf b/modules/nf-core/subread/featurecounts/main.nf
index 18e2a92bb05..cbc833fe822 100644
--- a/modules/nf-core/subread/featurecounts/main.nf
+++ b/modules/nf-core/subread/featurecounts/main.nf
@@ -2,7 +2,7 @@ process SUBREAD_FEATURECOUNTS {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::subread=2.0.1" : null)
+    conda "bioconda::subread=2.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/subread:2.0.1--hed695b0_0' :
         'quay.io/biocontainers/subread:2.0.1--hed695b0_0' }"
diff --git a/modules/nf-core/svdb/merge/main.nf b/modules/nf-core/svdb/merge/main.nf
index 7dd926537f7..8544daff991 100644
--- a/modules/nf-core/svdb/merge/main.nf
+++ b/modules/nf-core/svdb/merge/main.nf
@@ -1,7 +1,7 @@
 process SVDB_MERGE {
     tag "$meta.id"
     label 'process_medium'
-    conda (params.enable_conda ? "bioconda::svdb=2.8.1 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::svdb=2.8.1 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-c8daa8f9d69d3c5a1a4ff08283a166c18edb0000:af6f8534cd538a85ff43a2eae1b52b143e7abd05-0':
         'quay.io/biocontainers/mulled-v2-c8daa8f9d69d3c5a1a4ff08283a166c18edb0000:af6f8534cd538a85ff43a2eae1b52b143e7abd05-0' }"
diff --git a/modules/nf-core/svdb/query/main.nf b/modules/nf-core/svdb/query/main.nf
index aee9aad1636..f5e7da0f9c5 100644
--- a/modules/nf-core/svdb/query/main.nf
+++ b/modules/nf-core/svdb/query/main.nf
@@ -2,7 +2,7 @@ process SVDB_QUERY {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::svdb=2.8.1" : null)
+    conda "bioconda::svdb=2.8.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/svdb:2.8.1--py39h5371cbf_0':
         'quay.io/biocontainers/svdb:2.8.1--py39h5371cbf_0' }"
diff --git a/modules/nf-core/svtk/baftest/main.nf b/modules/nf-core/svtk/baftest/main.nf
index e22a7590d54..cd67be97939 100644
--- a/modules/nf-core/svtk/baftest/main.nf
+++ b/modules/nf-core/svtk/baftest/main.nf
@@ -2,7 +2,7 @@ process SVTK_BAFTEST {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::svtk=0.0.20190615" : null)
+    conda "bioconda::svtk=0.0.20190615"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/svtk:0.0.20190615--py37h73a75cf_2':
         'quay.io/biocontainers/svtk:0.0.20190615--py37h73a75cf_2' }"
diff --git a/modules/nf-core/svtk/countsvtypes/main.nf b/modules/nf-core/svtk/countsvtypes/main.nf
index 4d3c6044cd4..9804eb756ad 100644
--- a/modules/nf-core/svtk/countsvtypes/main.nf
+++ b/modules/nf-core/svtk/countsvtypes/main.nf
@@ -2,7 +2,7 @@ process SVTK_COUNTSVTYPES {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::svtk=0.0.20190615" : null)
+    conda "bioconda::svtk=0.0.20190615"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/svtk:0.0.20190615--py37h73a75cf_2':
         'quay.io/biocontainers/svtk:0.0.20190615--py37h73a75cf_2' }"
diff --git a/modules/nf-core/svtk/rdtest2vcf/main.nf b/modules/nf-core/svtk/rdtest2vcf/main.nf
index e4dd68db590..9da9e61e423 100644
--- a/modules/nf-core/svtk/rdtest2vcf/main.nf
+++ b/modules/nf-core/svtk/rdtest2vcf/main.nf
@@ -2,7 +2,7 @@ process SVTK_RDTEST2VCF {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::svtk=0.0.20190615" : null)
+    conda "bioconda::svtk=0.0.20190615"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/svtk:0.0.20190615--py37h73a75cf_2':
         'quay.io/biocontainers/svtk:0.0.20190615--py37h73a75cf_2' }"
diff --git a/modules/nf-core/svtk/standardize/main.nf b/modules/nf-core/svtk/standardize/main.nf
index 104afc202dc..6220a7e7f56 100644
--- a/modules/nf-core/svtk/standardize/main.nf
+++ b/modules/nf-core/svtk/standardize/main.nf
@@ -2,7 +2,7 @@ process SVTK_STANDARDIZE {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::svtk=0.0.20190615" : null)
+    conda "bioconda::svtk=0.0.20190615"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/svtk:0.0.20190615--py37h73a75cf_2':
         'quay.io/biocontainers/svtk:0.0.20190615--py37h73a75cf_2' }"
diff --git a/modules/nf-core/svtk/vcf2bed/main.nf b/modules/nf-core/svtk/vcf2bed/main.nf
index acb5446f06c..5e4f0443f70 100644
--- a/modules/nf-core/svtk/vcf2bed/main.nf
+++ b/modules/nf-core/svtk/vcf2bed/main.nf
@@ -2,7 +2,7 @@ process SVTK_VCF2BED {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::svtk=0.0.20190615" : null)
+    conda "bioconda::svtk=0.0.20190615"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/svtk:0.0.20190615--py37h73a75cf_2':
         'quay.io/biocontainers/svtk:0.0.20190615--py37h73a75cf_2' }"
diff --git a/modules/nf-core/tabix/bgzip/main.nf b/modules/nf-core/tabix/bgzip/main.nf
index 6bdc0b0ec70..7862445f36c 100644
--- a/modules/nf-core/tabix/bgzip/main.nf
+++ b/modules/nf-core/tabix/bgzip/main.nf
@@ -2,7 +2,7 @@ process TABIX_BGZIP {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? 'bioconda::tabix=1.11' : null)
+    conda "bioconda::tabix=1.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/tabix:1.11--hdfd78af_0' :
         'quay.io/biocontainers/tabix:1.11--hdfd78af_0' }"
diff --git a/modules/nf-core/tabix/bgziptabix/main.nf b/modules/nf-core/tabix/bgziptabix/main.nf
index 0d05984add7..d3a3bbffce1 100644
--- a/modules/nf-core/tabix/bgziptabix/main.nf
+++ b/modules/nf-core/tabix/bgziptabix/main.nf
@@ -2,7 +2,7 @@ process TABIX_BGZIPTABIX {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? 'bioconda::tabix=1.11' : null)
+    conda "bioconda::tabix=1.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/tabix:1.11--hdfd78af_0' :
         'quay.io/biocontainers/tabix:1.11--hdfd78af_0' }"
diff --git a/modules/nf-core/tabix/tabix/main.nf b/modules/nf-core/tabix/tabix/main.nf
index 21b2e79f484..9a404db9316 100644
--- a/modules/nf-core/tabix/tabix/main.nf
+++ b/modules/nf-core/tabix/tabix/main.nf
@@ -2,7 +2,7 @@ process TABIX_TABIX {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? 'bioconda::tabix=1.11' : null)
+    conda "bioconda::tabix=1.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/tabix:1.11--hdfd78af_0' :
         'quay.io/biocontainers/tabix:1.11--hdfd78af_0' }"
diff --git a/modules/nf-core/tailfindr/main.nf b/modules/nf-core/tailfindr/main.nf
index 445fa1be14b..8c363f153fc 100644
--- a/modules/nf-core/tailfindr/main.nf
+++ b/modules/nf-core/tailfindr/main.nf
@@ -2,7 +2,7 @@ process TAILFINDR {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::ont-fast5-api=0.4.1 bioconda::r-tailfindr=1.3" : null)
+    conda "bioconda::ont-fast5-api=0.4.1 bioconda::r-tailfindr=1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-f24f1399a77784f913670cbb36a0f17b78e0631b:80e40d512cd5a71665e3e00e8d0ad1462fc58f76-0':
         'quay.io/biocontainers/mulled-v2-f24f1399a77784f913670cbb36a0f17b78e0631b:80e40d512cd5a71665e3e00e8d0ad1462fc58f76-0' }"
diff --git a/modules/nf-core/tbprofiler/profile/main.nf b/modules/nf-core/tbprofiler/profile/main.nf
index 17c94a34bdb..2348069d02e 100644
--- a/modules/nf-core/tbprofiler/profile/main.nf
+++ b/modules/nf-core/tbprofiler/profile/main.nf
@@ -2,7 +2,7 @@ process TBPROFILER_PROFILE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::tb-profiler=3.0.8" : null)
+    conda "bioconda::tb-profiler=3.0.8"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/tb-profiler:3.0.8--pypyh5e36f6f_0' :
         'quay.io/biocontainers/tb-profiler:3.0.8--pypyh5e36f6f_0' }"
diff --git a/modules/nf-core/tiddit/cov/main.nf b/modules/nf-core/tiddit/cov/main.nf
index a0a795235eb..dec79332b6a 100644
--- a/modules/nf-core/tiddit/cov/main.nf
+++ b/modules/nf-core/tiddit/cov/main.nf
@@ -2,7 +2,7 @@ process TIDDIT_COV {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::tiddit=3.3.2" : null)
+    conda "bioconda::tiddit=3.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/tiddit:3.3.2--py310hc2b7f4b_0' :
         'quay.io/biocontainers/tiddit:3.3.2--py310hc2b7f4b_0' }"
diff --git a/modules/nf-core/tiddit/sv/main.nf b/modules/nf-core/tiddit/sv/main.nf
index 7faefa99c77..45f9588a9ed 100644
--- a/modules/nf-core/tiddit/sv/main.nf
+++ b/modules/nf-core/tiddit/sv/main.nf
@@ -2,7 +2,7 @@ process TIDDIT_SV {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::tiddit=3.3.2" : null)
+    conda "bioconda::tiddit=3.3.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/tiddit:3.3.2--py310hc2b7f4b_0' :
         'quay.io/biocontainers/tiddit:3.3.2--py310hc2b7f4b_0' }"
diff --git a/modules/nf-core/transdecoder/longorf/main.nf b/modules/nf-core/transdecoder/longorf/main.nf
index 9d5c20f2062..fcba9c5dded 100644
--- a/modules/nf-core/transdecoder/longorf/main.nf
+++ b/modules/nf-core/transdecoder/longorf/main.nf
@@ -2,7 +2,7 @@ process TRANSDECODER_LONGORF {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::transdecoder=5.5.0" : null)
+    conda "bioconda::transdecoder=5.5.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
     'https://depot.galaxyproject.org/singularity/transdecoder:5.5.0--pl5262hdfd78af_4' :
     'quay.io/comp-bio-aging/transdecoder' }"
diff --git a/modules/nf-core/transdecoder/predict/main.nf b/modules/nf-core/transdecoder/predict/main.nf
index dccc031ce16..a5c13fdacbf 100644
--- a/modules/nf-core/transdecoder/predict/main.nf
+++ b/modules/nf-core/transdecoder/predict/main.nf
@@ -2,7 +2,7 @@ process TRANSDECODER_PREDICT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::transdecoder=5.5.0" : null)
+    conda "bioconda::transdecoder=5.5.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/transdecoder:5.5.0--pl5262hdfd78af_4':
         'quay.io/comp-bio-aging/transdecoder' }"
diff --git a/modules/nf-core/trimgalore/main.nf b/modules/nf-core/trimgalore/main.nf
index 5b45e4d7f7c..ab8bb14ec1b 100644
--- a/modules/nf-core/trimgalore/main.nf
+++ b/modules/nf-core/trimgalore/main.nf
@@ -2,7 +2,7 @@ process TRIMGALORE {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::trim-galore=0.6.7' : null)
+    conda "bioconda::trim-galore=0.6.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/trim-galore:0.6.7--hdfd78af_0' :
         'quay.io/biocontainers/trim-galore:0.6.7--hdfd78af_0' }"
diff --git a/modules/nf-core/trimmomatic/main.nf b/modules/nf-core/trimmomatic/main.nf
index 216fa06f66d..ab58c825b08 100644
--- a/modules/nf-core/trimmomatic/main.nf
+++ b/modules/nf-core/trimmomatic/main.nf
@@ -2,7 +2,7 @@ process TRIMMOMATIC {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::trimmomatic=0.39" : null)
+    conda "bioconda::trimmomatic=0.39"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/trimmomatic:0.39--hdfd78af_2':
         'quay.io/biocontainers/trimmomatic:0.39--hdfd78af_2' }"
diff --git a/modules/nf-core/ucsc/bedclip/main.nf b/modules/nf-core/ucsc/bedclip/main.nf
index 42dd08bb1b5..365c5319610 100755
--- a/modules/nf-core/ucsc/bedclip/main.nf
+++ b/modules/nf-core/ucsc/bedclip/main.nf
@@ -3,7 +3,7 @@ process UCSC_BEDCLIP {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::ucsc-bedclip=377" : null)
+    conda "bioconda::ucsc-bedclip=377"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ucsc-bedclip:377--h0b8a92a_2' :
         'quay.io/biocontainers/ucsc-bedclip:377--h0b8a92a_2' }"
diff --git a/modules/nf-core/ucsc/bedgraphtobigwig/main.nf b/modules/nf-core/ucsc/bedgraphtobigwig/main.nf
index a2979e04455..defda3ef52e 100644
--- a/modules/nf-core/ucsc/bedgraphtobigwig/main.nf
+++ b/modules/nf-core/ucsc/bedgraphtobigwig/main.nf
@@ -3,7 +3,7 @@ process UCSC_BEDGRAPHTOBIGWIG {
     label 'process_single'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::ucsc-bedgraphtobigwig=377" : null)
+    conda "bioconda::ucsc-bedgraphtobigwig=377"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ucsc-bedgraphtobigwig:377--h446ed27_1' :
         'quay.io/biocontainers/ucsc-bedgraphtobigwig:377--h446ed27_1' }"
diff --git a/modules/nf-core/ucsc/bedtobigbed/main.nf b/modules/nf-core/ucsc/bedtobigbed/main.nf
index 3acc8f3645f..efa62f9af79 100644
--- a/modules/nf-core/ucsc/bedtobigbed/main.nf
+++ b/modules/nf-core/ucsc/bedtobigbed/main.nf
@@ -3,7 +3,7 @@ process UCSC_BEDTOBIGBED {
     label 'process_single'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::ucsc-bedtobigbed=377" : null)
+    conda "bioconda::ucsc-bedtobigbed=377"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ucsc-bedtobigbed:377--ha8a8165_3' :
         'quay.io/biocontainers/ucsc-bedtobigbed:377--ha8a8165_3' }"
diff --git a/modules/nf-core/ucsc/bigwigaverageoverbed/main.nf b/modules/nf-core/ucsc/bigwigaverageoverbed/main.nf
index 05e14278848..2221c440cfe 100644
--- a/modules/nf-core/ucsc/bigwigaverageoverbed/main.nf
+++ b/modules/nf-core/ucsc/bigwigaverageoverbed/main.nf
@@ -3,7 +3,7 @@ process UCSC_BIGWIGAVERAGEOVERBED {
     label 'process_single'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::ucsc-bigwigaverageoverbed=377" : null)
+    conda "bioconda::ucsc-bigwigaverageoverbed=377"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ucsc-bigwigaverageoverbed:377--h0b8a92a_2' :
         'quay.io/biocontainers/ucsc-bigwigaverageoverbed:377--h0b8a92a_2' }"
diff --git a/modules/nf-core/ucsc/gtftogenepred/main.nf b/modules/nf-core/ucsc/gtftogenepred/main.nf
index d49a7d72597..6db246f434a 100644
--- a/modules/nf-core/ucsc/gtftogenepred/main.nf
+++ b/modules/nf-core/ucsc/gtftogenepred/main.nf
@@ -2,7 +2,7 @@ process UCSC_GTFTOGENEPRED {
     tag '${meta.id}'
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::ucsc-gtftogenepred=377" : null)
+    conda "bioconda::ucsc-gtftogenepred=377"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ucsc-gtftogenepred:377--ha8a8165_5':
         'quay.io/biocontainers/ucsc-gtftogenepred:377--ha8a8165_5' }"
diff --git a/modules/nf-core/ucsc/liftover/main.nf b/modules/nf-core/ucsc/liftover/main.nf
index 1dc96975a3d..0e03fed3d57 100644
--- a/modules/nf-core/ucsc/liftover/main.nf
+++ b/modules/nf-core/ucsc/liftover/main.nf
@@ -3,7 +3,7 @@ process UCSC_LIFTOVER {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::ucsc-liftover=377" : null)
+    conda "bioconda::ucsc-liftover=377"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ucsc-liftover:377--h0b8a92a_3' :
         'quay.io/biocontainers/ucsc-liftover:377--h0b8a92a_3' }"
diff --git a/modules/nf-core/ucsc/wigtobigwig/main.nf b/modules/nf-core/ucsc/wigtobigwig/main.nf
index cf76cf0a657..7626159eeea 100644
--- a/modules/nf-core/ucsc/wigtobigwig/main.nf
+++ b/modules/nf-core/ucsc/wigtobigwig/main.nf
@@ -3,7 +3,7 @@ process UCSC_WIGTOBIGWIG {
     label 'process_single'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::ucsc-wigtobigwig=377" : null)
+    conda "bioconda::ucsc-wigtobigwig=377"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ucsc-wigtobigwig:377--h0b8a92a_2' :
         'quay.io/biocontainers/ucsc-wigtobigwig:377--h0b8a92a_2' }"
diff --git a/modules/nf-core/ultra/align/main.nf b/modules/nf-core/ultra/align/main.nf
index 945c94b9c3a..3b270651576 100644
--- a/modules/nf-core/ultra/align/main.nf
+++ b/modules/nf-core/ultra/align/main.nf
@@ -2,7 +2,7 @@ process ULTRA_ALIGN {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::ultra_bioinformatics=0.0.4.2 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::ultra_bioinformatics=0.0.4.2 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-4b749ef583d6de806ddbf51c2d235ac8c14763c6:bda5f599c82caf73ec2e2fe0133ce3eb53f1c724-0':
         'quay.io/biocontainers/mulled-v2-4b749ef583d6de806ddbf51c2d235ac8c14763c6:bda5f599c82caf73ec2e2fe0133ce3eb53f1c724-0' }"
diff --git a/modules/nf-core/ultra/index/main.nf b/modules/nf-core/ultra/index/main.nf
index c4a6af44a1a..05d902c171c 100644
--- a/modules/nf-core/ultra/index/main.nf
+++ b/modules/nf-core/ultra/index/main.nf
@@ -2,7 +2,7 @@ process ULTRA_INDEX {
     tag "$gtf"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::ultra_bioinformatics=0.0.4.2" : null)
+    conda "bioconda::ultra_bioinformatics=0.0.4.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ultra_bioinformatics:0.0.4.2--pyh7cba7a3_0':
         'quay.io/biocontainers/ultra_bioinformatics:0.0.4.2--pyh7cba7a3_0' }"
diff --git a/modules/nf-core/ultra/pipeline/main.nf b/modules/nf-core/ultra/pipeline/main.nf
index 4b690c26b68..96983fea8d5 100644
--- a/modules/nf-core/ultra/pipeline/main.nf
+++ b/modules/nf-core/ultra/pipeline/main.nf
@@ -2,7 +2,7 @@ process ULTRA_PIPELINE {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? "bioconda::ultra_bioinformatics=0.0.4.2" : null)
+    conda "bioconda::ultra_bioinformatics=0.0.4.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ultra_bioinformatics:0.0.4.2--pyh7cba7a3_0' :
         'quay.io/biocontainers/ultra_bioinformatics:0.0.4.2--pyh7cba7a3_0' }"
diff --git a/modules/nf-core/umitools/dedup/main.nf b/modules/nf-core/umitools/dedup/main.nf
index 48559d818bc..64200138994 100644
--- a/modules/nf-core/umitools/dedup/main.nf
+++ b/modules/nf-core/umitools/dedup/main.nf
@@ -2,7 +2,7 @@ process UMITOOLS_DEDUP {
     tag "$meta.id"
     label "process_medium"
 
-    conda (params.enable_conda ? "bioconda::umi_tools=1.1.2" : null)
+    conda "bioconda::umi_tools=1.1.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/umi_tools:1.1.2--py38h4a8c8d9_0' :
         'quay.io/biocontainers/umi_tools:1.1.2--py38h4a8c8d9_0' }"
diff --git a/modules/nf-core/umitools/extract/main.nf b/modules/nf-core/umitools/extract/main.nf
index 22a405b9704..731f164c2b5 100644
--- a/modules/nf-core/umitools/extract/main.nf
+++ b/modules/nf-core/umitools/extract/main.nf
@@ -2,7 +2,7 @@ process UMITOOLS_EXTRACT {
     tag "$meta.id"
     label "process_low"
 
-    conda (params.enable_conda ? "bioconda::umi_tools=1.1.2" : null)
+    conda "bioconda::umi_tools=1.1.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/umi_tools:1.1.2--py38h4a8c8d9_0' :
         'quay.io/biocontainers/umi_tools:1.1.2--py38h4a8c8d9_0' }"
diff --git a/modules/nf-core/unicycler/main.nf b/modules/nf-core/unicycler/main.nf
index 4d3721b0367..8981c4330fd 100644
--- a/modules/nf-core/unicycler/main.nf
+++ b/modules/nf-core/unicycler/main.nf
@@ -2,7 +2,7 @@ process UNICYCLER {
     tag "$meta.id"
     label 'process_high'
 
-    conda (params.enable_conda ? 'bioconda::unicycler=0.4.8' : null)
+    conda "bioconda::unicycler=0.4.8"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/unicycler:0.4.8--py38h8162308_3' :
         'quay.io/biocontainers/unicycler:0.4.8--py38h8162308_3' }"
diff --git a/modules/nf-core/untar/main.nf b/modules/nf-core/untar/main.nf
index 71eea7b2c68..16bccc90593 100644
--- a/modules/nf-core/untar/main.nf
+++ b/modules/nf-core/untar/main.nf
@@ -2,7 +2,7 @@ process UNTAR {
     tag "$archive"
     label 'process_single'
 
-    conda (params.enable_conda ? "conda-forge::sed=4.7" : null)
+    conda "conda-forge::sed=4.7"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/ubuntu:20.04' :
         'ubuntu:20.04' }"
diff --git a/modules/nf-core/unzip/main.nf b/modules/nf-core/unzip/main.nf
index bb645ca63f0..18c1f08c869 100644
--- a/modules/nf-core/unzip/main.nf
+++ b/modules/nf-core/unzip/main.nf
@@ -2,7 +2,7 @@ process UNZIP {
     tag "$archive"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::p7zip=15.09" : null)
+    conda "bioconda::p7zip=15.09"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/p7zip:15.09--h2d50403_4' :
         'quay.io/biocontainers/p7zip:15.09--h2d50403_4' }"
diff --git a/modules/nf-core/vardictjava/main.nf b/modules/nf-core/vardictjava/main.nf
index 42c9b5136a1..9199e75e03b 100644
--- a/modules/nf-core/vardictjava/main.nf
+++ b/modules/nf-core/vardictjava/main.nf
@@ -2,7 +2,7 @@ process VARDICTJAVA {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::vardict-java=1.8.3" : null)
+    conda "bioconda::vardict-java=1.8.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/vardict-java:1.8.3--hdfd78af_0':
         'quay.io/biocontainers/vardict-java:1.8.3--hdfd78af_0' }"
diff --git a/modules/nf-core/variantbam/main.nf b/modules/nf-core/variantbam/main.nf
index 8f08077861e..cfe59763c21 100644
--- a/modules/nf-core/variantbam/main.nf
+++ b/modules/nf-core/variantbam/main.nf
@@ -3,7 +3,7 @@ process VARIANTBAM {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::variantbam=1.4.4a" : null)
+    conda "bioconda::variantbam=1.4.4a"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/variantbam:1.4.4a--h7d7f7ad_5' :
         'quay.io/biocontainers/variantbam:1.4.4a--h7d7f7ad_5' }"
diff --git a/modules/nf-core/vcf2db/main.nf b/modules/nf-core/vcf2db/main.nf
index ed11bf90d2e..399acb909be 100644
--- a/modules/nf-core/vcf2db/main.nf
+++ b/modules/nf-core/vcf2db/main.nf
@@ -3,7 +3,7 @@ process VCF2DB {
     label 'process_medium'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::vcf2db=2020.02.24" : null)
+    conda "bioconda::vcf2db=2020.02.24"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/vcf2db:2020.02.24--hdfd78af_1':
         'quay.io/biocontainers/vcf2db:2020.02.24--hdfd78af_1' }"
diff --git a/modules/nf-core/vcf2maf/main.nf b/modules/nf-core/vcf2maf/main.nf
index 52a59149e43..98626930d27 100644
--- a/modules/nf-core/vcf2maf/main.nf
+++ b/modules/nf-core/vcf2maf/main.nf
@@ -4,7 +4,7 @@ process VCF2MAF {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::vcf2maf=1.6.21 bioconda::ensembl-vep=106.1" : null)
+    conda "bioconda::vcf2maf=1.6.21 bioconda::ensembl-vep=106.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-b6fc09bed47d0dc4d8384ce9e04af5806f2cc91b:305092c6f8420acd17377d2cc8b96e1c3ccb7d26-0':
         'quay.io/biocontainers/mulled-v2-b6fc09bed47d0dc4d8384ce9e04af5806f2cc91b:305092c6f8420acd17377d2cc8b96e1c3ccb7d26-0' }"
diff --git a/modules/nf-core/vcfanno/main.nf b/modules/nf-core/vcfanno/main.nf
index c8b432f66f3..2d5d162a3a3 100644
--- a/modules/nf-core/vcfanno/main.nf
+++ b/modules/nf-core/vcfanno/main.nf
@@ -2,7 +2,7 @@ process VCFANNO {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::vcfanno=0.3.3" : null)
+    conda "bioconda::vcfanno=0.3.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/vcfanno:0.3.3--h9ee0642_0':
         'quay.io/biocontainers/vcfanno:0.3.3--h9ee0642_0' }"
diff --git a/modules/nf-core/vcflib/vcfbreakmulti/main.nf b/modules/nf-core/vcflib/vcfbreakmulti/main.nf
index 0eb9cd7bda2..0d71b0dd7d1 100644
--- a/modules/nf-core/vcflib/vcfbreakmulti/main.nf
+++ b/modules/nf-core/vcflib/vcfbreakmulti/main.nf
@@ -2,7 +2,7 @@ process VCFLIB_VCFBREAKMULTI {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::vcflib=1.0.3" : null)
+    conda "bioconda::vcflib=1.0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/vcflib:1.0.3--hecb563c_1':
         'quay.io/biocontainers/vcflib:1.0.3--ha025227_0' }"
diff --git a/modules/nf-core/vcflib/vcfuniq/main.nf b/modules/nf-core/vcflib/vcfuniq/main.nf
index 707f074b841..6b09dc4da08 100644
--- a/modules/nf-core/vcflib/vcfuniq/main.nf
+++ b/modules/nf-core/vcflib/vcfuniq/main.nf
@@ -3,7 +3,7 @@ process VCFLIB_VCFUNIQ {
     label 'process_low'
 
     // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
-    conda (params.enable_conda ? "bioconda::vcflib=1.0.3" : null)
+    conda "bioconda::vcflib=1.0.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/vcflib:1.0.3--hecb563c_1':
         'quay.io/biocontainers/vcflib:1.0.3--hecb563c_1' }"
diff --git a/modules/nf-core/vcftools/main.nf b/modules/nf-core/vcftools/main.nf
index feefb0e3f8d..637543c0db8 100644
--- a/modules/nf-core/vcftools/main.nf
+++ b/modules/nf-core/vcftools/main.nf
@@ -2,7 +2,7 @@ process VCFTOOLS {
     tag "$meta.id"
     label 'process_single'
 
-    conda (params.enable_conda ? "bioconda::vcftools=0.1.16" : null)
+    conda "bioconda::vcftools=0.1.16"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/vcftools:0.1.16--he513fc3_4' :
         'quay.io/biocontainers/vcftools:0.1.16--he513fc3_4' }"
diff --git a/modules/nf-core/verifybamid/verifybamid/main.nf b/modules/nf-core/verifybamid/verifybamid/main.nf
index 860c5712b62..f9189604bd9 100644
--- a/modules/nf-core/verifybamid/verifybamid/main.nf
+++ b/modules/nf-core/verifybamid/verifybamid/main.nf
@@ -2,7 +2,7 @@ process VERIFYBAMID_VERIFYBAMID {
     tag "${meta.id}"
     label "process_single"
 
-    conda (params.enable_conda ? "bioconda::verifybamid=1.1.3" : null)
+    conda "bioconda::verifybamid=1.1.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/verifybamid%3A1.1.3--h5b5514e_6':
         'quay.io/biocontainers/verifybamid:1.1.3--h5b5514e_6' }"
diff --git a/modules/nf-core/verifybamid/verifybamid2/main.nf b/modules/nf-core/verifybamid/verifybamid2/main.nf
index cada11f22f9..6c548c7ac48 100644
--- a/modules/nf-core/verifybamid/verifybamid2/main.nf
+++ b/modules/nf-core/verifybamid/verifybamid2/main.nf
@@ -2,7 +2,7 @@ process VERIFYBAMID_VERIFYBAMID2 {
     tag '${meta.id}'
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::verifybamid2=2.0.1" : null)
+    conda "bioconda::verifybamid2=2.0.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/verifybamid2:2.0.1--hbb20b25_6' :
         'quay.io/biocontainers/verifybamid2:2.0.1--h19d48f6_8' }"
diff --git a/modules/nf-core/vg/deconstruct/main.nf b/modules/nf-core/vg/deconstruct/main.nf
index 2337ab84c33..8ca70a52a6a 100644
--- a/modules/nf-core/vg/deconstruct/main.nf
+++ b/modules/nf-core/vg/deconstruct/main.nf
@@ -2,7 +2,7 @@ process VG_DECONSTRUCT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? 'bioconda::vg=1.43.0' : null)
+    conda "bioconda::vg=1.43.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/vg:1.43.0--h9ee0642_0' :
         'quay.io/biocontainers/vg:1.43.0--h9ee0642_0' }"
diff --git a/modules/nf-core/vsearch/cluster/main.nf b/modules/nf-core/vsearch/cluster/main.nf
index 3413da46783..7bcda8ac185 100644
--- a/modules/nf-core/vsearch/cluster/main.nf
+++ b/modules/nf-core/vsearch/cluster/main.nf
@@ -2,7 +2,7 @@ process VSEARCH_CLUSTER {
     tag "$meta.id"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::vsearch=2.21.1 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::vsearch=2.21.1 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-53dae514294fca7b44842b784ed85a5303ac2d80:7b3365d778c690ca79bc85aaaeb86bb39a2dec69-0':
         'quay.io/biocontainers/mulled-v2-53dae514294fca7b44842b784ed85a5303ac2d80:7b3365d778c690ca79bc85aaaeb86bb39a2dec69-0' }"
diff --git a/modules/nf-core/vsearch/sintax/main.nf b/modules/nf-core/vsearch/sintax/main.nf
index e2ffbe8357a..273ca6984ca 100644
--- a/modules/nf-core/vsearch/sintax/main.nf
+++ b/modules/nf-core/vsearch/sintax/main.nf
@@ -2,7 +2,7 @@ process VSEARCH_SINTAX {
     tag "${meta.id}"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::vsearch=2.21.1" : null)
+    conda "bioconda::vsearch=2.21.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/vsearch:2.21.1--h95f258a_0':
         'quay.io/biocontainers/vsearch:2.21.1--h95f258a_0' }"
diff --git a/modules/nf-core/vsearch/usearchglobal/main.nf b/modules/nf-core/vsearch/usearchglobal/main.nf
index c85546c1fb6..7ce662baa11 100644
--- a/modules/nf-core/vsearch/usearchglobal/main.nf
+++ b/modules/nf-core/vsearch/usearchglobal/main.nf
@@ -2,7 +2,7 @@ process VSEARCH_USEARCHGLOBAL {
     tag "${meta.id}"
     label 'process_low'
 
-    conda (params.enable_conda ? "bioconda::vsearch=2.21.1" : null)
+    conda "bioconda::vsearch=2.21.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/vsearch:2.21.1--h95f258a_0':
         'quay.io/biocontainers/vsearch:2.21.1--h95f258a_0' }"
diff --git a/modules/nf-core/wfmash/main.nf b/modules/nf-core/wfmash/main.nf
index b960e5a60e8..f87acdf9f8d 100644
--- a/modules/nf-core/wfmash/main.nf
+++ b/modules/nf-core/wfmash/main.nf
@@ -2,7 +2,7 @@ process WFMASH {
     tag '$bam'
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::wfmash=0.10.0" : null)
+    conda "bioconda::wfmash=0.10.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/wfmash:0.10.0--hfdddef0_0':
         'quay.io/biocontainers/wfmash:0.10.0--hfdddef0_0' }"
diff --git a/modules/nf-core/wgsim/main.nf b/modules/nf-core/wgsim/main.nf
index bca784db6a6..64b40692d2b 100644
--- a/modules/nf-core/wgsim/main.nf
+++ b/modules/nf-core/wgsim/main.nf
@@ -2,7 +2,7 @@ process WGSIM {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::wgsim=1.0" : null)
+    conda "bioconda::wgsim=1.0"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/wgsim:1.0--h5bf99c6_4':
         'quay.io/biocontainers/wgsim:1.0--h5bf99c6_4' }"
diff --git a/modules/nf-core/whamg/main.nf b/modules/nf-core/whamg/main.nf
index 23034777ffa..2845f74321a 100644
--- a/modules/nf-core/whamg/main.nf
+++ b/modules/nf-core/whamg/main.nf
@@ -2,7 +2,7 @@ process WHAMG {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::wham=1.8.0 bioconda::tabix=1.11" : null)
+    conda "bioconda::wham=1.8.0 bioconda::tabix=1.11"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-fb3127231a8f88daa68d5eb0eec49593cd98b440:e6a1c182ebdfe372b5e3cdc05a6cece64cef7274-0':
         'quay.io/biocontainers/mulled-v2-fb3127231a8f88daa68d5eb0eec49593cd98b440:e6a1c182ebdfe372b5e3cdc05a6cece64cef7274-0' }"
diff --git a/modules/nf-core/yara/index/main.nf b/modules/nf-core/yara/index/main.nf
index b6bae9a941e..55f12975a73 100644
--- a/modules/nf-core/yara/index/main.nf
+++ b/modules/nf-core/yara/index/main.nf
@@ -2,7 +2,7 @@ process YARA_INDEX {
     tag "$fasta"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::yara=1.0.2" : null)
+    conda "bioconda::yara=1.0.2"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/yara:1.0.2--2' :
         'quay.io/biocontainers/yara:1.0.2--2' }"
diff --git a/modules/nf-core/yara/mapper/main.nf b/modules/nf-core/yara/mapper/main.nf
index 01bc00c6490..8c87563761f 100644
--- a/modules/nf-core/yara/mapper/main.nf
+++ b/modules/nf-core/yara/mapper/main.nf
@@ -2,7 +2,7 @@ process YARA_MAPPER {
     tag "$meta.id"
     label 'process_medium'
 
-    conda (params.enable_conda ? "bioconda::yara=1.0.2 bioconda::samtools=1.16.1" : null)
+    conda "bioconda::yara=1.0.2 bioconda::samtools=1.16.1"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/mulled-v2-f13549097a0d1ca36f9d4f017636fb3609f6c083:de7982183b85634270540ac760c2644f16e0b6d1-0' :
         'quay.io/biocontainers/mulled-v2-f13549097a0d1ca36f9d4f017636fb3609f6c083:de7982183b85634270540ac760c2644f16e0b6d1-0' }"
diff --git a/tests/config/nextflow.config b/tests/config/nextflow.config
index 98b9eed7363..20a06c5a7ca 100644
--- a/tests/config/nextflow.config
+++ b/tests/config/nextflow.config
@@ -1,7 +1,6 @@
 params {
     outdir = "output/"
     publish_dir_mode = "copy"
-    enable_conda = false
     singularity_pull_docker_container = false
 }
 
@@ -15,8 +14,10 @@ if ("$PROFILE" == "singularity") {
     singularity.enabled = true
     singularity.autoMounts = true
 } else if ("$PROFILE" == "conda") {
-    params.enable_conda = true
-    conda.enabled=true
+    conda.enabled = true
+} else if ("$PROFILE" == "mamba") {
+    conda.enabled  = true
+    conda.useMamba = true
 } else {
     docker.enabled = true
     docker.userEmulation = true
@@ -30,5 +31,5 @@ conda { createTimeout = "120 min" }
 includeConfig 'test_data.config'
 
 manifest {
-    nextflowVersion = '!>=21.10.0'
+    nextflowVersion = '!>=22.10.1'
 }