liftoff: Re-added conda environment (#5981)

* liftoff: Readded conda environment * Added liftoff to env file * Cleaned up env file
nf-core · Jul 18, 2024 · fb8d53f · fb8d53f
1 parent 132fa6c
commit fb8d53f
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Showing 4 changed files with 10 additions and 4 deletions.
diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
@@ -624,8 +624,6 @@ jobs:
             path: modules/nf-core/wittyer
           - profile: conda
             path: modules/nf-core/islandpath
-          - profile: conda
-            path: modules/nf-core/liftoff
           - profile: conda
             path: subworkflows/nf-core/vcf_annotate_ensemblvep
           - profile: conda

diff --git a/modules/nf-core/liftoff/environment.yml b/modules/nf-core/liftoff/environment.yml
@@ -0,0 +1,9 @@
+name: liftoff
+
+channels:
+  - conda-forge
+  - bioconda
+  - defaults
+
+dependencies:
+  - bioconda::liftoff=1.6.3
diff --git a/modules/nf-core/liftoff/main.nf b/modules/nf-core/liftoff/main.nf
@@ -2,6 +2,7 @@ process LIFTOFF {
     tag "$meta.id"
     label 'process_high'
 
+    conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/liftoff:1.6.3--pyhdfd78af_0':
         'biocontainers/liftoff:1.6.3--pyhdfd78af_0' }"

diff --git a/modules/nf-core/liftoff/tests/tags.yml b/modules/nf-core/liftoff/tests/tags.yml