From 8d9910001b09ad7ac48e981072be8f6048a4103f Mon Sep 17 00:00:00 2001 From: Nicolas Vannieuwkerke <101190534+nvnieuwk@users.noreply.github.com> Date: Tue, 24 Sep 2024 17:13:19 +0200 Subject: [PATCH] update wcx predict (#100) * update wcx predict * fix snap * fix another snap * update all pipeline snaps --- modules.json | 2 +- modules/nf-core/wisecondorx/predict/main.nf | 4 +- modules/nf-core/wisecondorx/predict/meta.yml | 49 ++++++++++++------- .../predict/tests/main.nf.test.snap | 4 +- tests/pipeline/all_types/all.nf.test.snap | 42 ++++++++-------- tests/pipeline/cnv/cnv.nf.test.snap | 14 +++--- .../duplicates/duplicates.nf.test.snap | 10 ++-- tests/pipeline/families/families.nf.test.snap | 48 +++++++++--------- .../main.nf.test.snap | 8 +-- 9 files changed, 97 insertions(+), 84 deletions(-) diff --git a/modules.json b/modules.json index 5ca2f98a..9d6d5eda 100644 --- a/modules.json +++ b/modules.json @@ -163,7 +163,7 @@ }, "wisecondorx/predict": { "branch": "master", - "git_sha": "666652151335353eef2fcd58880bcef5bc2928e1", + "git_sha": "c3a2705bff298ffd2972bdb1b925b362491e2ee3", "installed_by": ["modules"] } } diff --git a/modules/nf-core/wisecondorx/predict/main.nf b/modules/nf-core/wisecondorx/predict/main.nf index 70005fc0..c4f68253 100644 --- a/modules/nf-core/wisecondorx/predict/main.nf +++ b/modules/nf-core/wisecondorx/predict/main.nf @@ -17,7 +17,7 @@ process WISECONDORX_PREDICT { tuple val(meta), path("*_aberrations.bed") , emit: aberrations_bed, optional:true tuple val(meta), path("*_bins.bed") , emit: bins_bed, optional:true tuple val(meta), path("*_segments.bed") , emit: segments_bed, optional:true - tuple val(meta), path("*_chr_statistics.txt") , emit: chr_statistics, optional:true + tuple val(meta), path("*_statistics.txt") , emit: chr_statistics, optional:true tuple val(meta), path("[!genome_wide]*.png") , emit: chr_plots, optional:true tuple val(meta), path("genome_wide.png") , emit: genome_plot, optional:true path "versions.yml" , emit: versions @@ -55,7 +55,7 @@ process WISECONDORX_PREDICT { def prefix = task.ext.prefix ?: "${meta.id}" def VERSION = '1.2.9' // WARN: Version information not provided by tool on CLI. Please update this string when bumping container versions. - def bed = args.contains("--bed") ? "touch ${prefix}_aberrations.bed && touch ${prefix}_bins.bed && touch ${prefix}_chr_statistics.txt && touch ${prefix}_segments.bed" : "" + def bed = args.contains("--bed") ? "touch ${prefix}_aberrations.bed && touch ${prefix}_bins.bed && touch ${prefix}_statistics.txt && touch ${prefix}_segments.bed" : "" def plot = args.contains("--plot") ? "touch genome_wide.png && touch chr22.png && touch chr1.png" : "" """ diff --git a/modules/nf-core/wisecondorx/predict/meta.yml b/modules/nf-core/wisecondorx/predict/meta.yml index ae175545..65b62b8f 100644 --- a/modules/nf-core/wisecondorx/predict/meta.yml +++ b/modules/nf-core/wisecondorx/predict/meta.yml @@ -50,10 +50,12 @@ output: description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] + pattern: "*_aberrations.bed" - "*_aberrations.bed": - type: file - description: OPTIONAL - Output abberations in BED format. This gets created - with the `--bed` option + type: map + description: | + Groovy Map containing sample information + e.g. [ id:'test', single_end:false ] pattern: "*_aberrations.bed" - bins_bed: - meta: @@ -61,10 +63,12 @@ output: description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] + pattern: "*_bins.bed" - "*_bins.bed": - type: file - description: OPTIONAL - Output bins in BED format. This gets created with the - `--bed` option + type: map + description: | + Groovy Map containing sample information + e.g. [ id:'test', single_end:false ] pattern: "*_bins.bed" - segments_bed: - meta: @@ -72,10 +76,12 @@ output: description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] + pattern: "*_segments.bed" - "*_segments.bed": - type: file - description: OPTIONAL - Output segments in BED format. This gets created with - the `--bed` option + type: map + description: | + Groovy Map containing sample information + e.g. [ id:'test', single_end:false ] pattern: "*_segments.bed" - chr_statistics: - meta: @@ -83,10 +89,12 @@ output: description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - - "*_chr_statistics.txt": - type: file - description: OPTIONAL - Statistics per chromosome in TXT format. This gets created - with the `--bed` option + pattern: "*_chr_statistics.txt" + - "*_statistics.txt": + type: map + description: | + Groovy Map containing sample information + e.g. [ id:'test', single_end:false ] pattern: "*_chr_statistics.txt" - chr_plots: - meta: @@ -94,10 +102,12 @@ output: description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] + pattern: "[!genome_wide]*.png" - "[!genome_wide]*.png": - type: list - description: OPTIONAL - A list containing the CNV plots of each chromosome. - This gets created with the `--plot` option + type: map + description: | + Groovy Map containing sample information + e.g. [ id:'test', single_end:false ] pattern: "[!genome_wide]*.png" - genome_plot: - meta: @@ -105,9 +115,12 @@ output: description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] + pattern: "genome_wide.png" - genome_wide.png: - type: file - description: OPTIONAL - A plot containing the CNV information of the whole genome + type: map + description: | + Groovy Map containing sample information + e.g. [ id:'test', single_end:false ] pattern: "genome_wide.png" - versions: - versions.yml: diff --git a/modules/nf-core/wisecondorx/predict/tests/main.nf.test.snap b/modules/nf-core/wisecondorx/predict/tests/main.nf.test.snap index 9381ba13..ce09d8b8 100644 --- a/modules/nf-core/wisecondorx/predict/tests/main.nf.test.snap +++ b/modules/nf-core/wisecondorx/predict/tests/main.nf.test.snap @@ -33,7 +33,7 @@ { "id": "test" }, - "test_chr_statistics.txt" + "test_statistics.txt" ] ], [ @@ -60,6 +60,6 @@ "nf-test": "0.9.0", "nextflow": "24.04.4" }, - "timestamp": "2024-08-29T13:48:50.058254" + "timestamp": "2024-09-24T14:47:28.342417115" } } \ No newline at end of file diff --git a/tests/pipeline/all_types/all.nf.test.snap b/tests/pipeline/all_types/all.nf.test.snap index 4396f4df..3f12cdb1 100644 --- a/tests/pipeline/all_types/all.nf.test.snap +++ b/tests/pipeline/all_types/all.nf.test.snap @@ -17,8 +17,8 @@ "PosCon1/PosCon1.sv.vcf.gz.tbi", "PosCon1/PosCon1.wisecondorx_aberrations.bed", "PosCon1/PosCon1.wisecondorx_bins.bed", - "PosCon1/PosCon1.wisecondorx_chr_statistics.txt", "PosCon1/PosCon1.wisecondorx_segments.bed", + "PosCon1/PosCon1.wisecondorx_statistics.txt", "PosCon1/chr1.png", "PosCon1/chr22.png", "PosCon1/genome_wide.png", @@ -35,8 +35,8 @@ "PosCon2/PosCon2.sv.vcf.gz.tbi", "PosCon2/PosCon2.wisecondorx_aberrations.bed", "PosCon2/PosCon2.wisecondorx_bins.bed", - "PosCon2/PosCon2.wisecondorx_chr_statistics.txt", "PosCon2/PosCon2.wisecondorx_segments.bed", + "PosCon2/PosCon2.wisecondorx_statistics.txt", "PosCon2/chr1.png", "PosCon2/chr22.png", "PosCon2/genome_wide.png", @@ -53,8 +53,8 @@ "PosCon3/PosCon3.sv.vcf.gz.tbi", "PosCon3/PosCon3.wisecondorx_aberrations.bed", "PosCon3/PosCon3.wisecondorx_bins.bed", - "PosCon3/PosCon3.wisecondorx_chr_statistics.txt", "PosCon3/PosCon3.wisecondorx_segments.bed", + "PosCon3/PosCon3.wisecondorx_statistics.txt", "PosCon3/chr1.png", "PosCon3/chr22.png", "PosCon3/genome_wide.png", @@ -71,8 +71,8 @@ "PosCon4/PosCon4.sv.vcf.gz.tbi", "PosCon4/PosCon4.wisecondorx_aberrations.bed", "PosCon4/PosCon4.wisecondorx_bins.bed", - "PosCon4/PosCon4.wisecondorx_chr_statistics.txt", "PosCon4/PosCon4.wisecondorx_segments.bed", + "PosCon4/PosCon4.wisecondorx_statistics.txt", "PosCon4/chr1.png", "PosCon4/chr22.png", "PosCon4/genome_wide.png", @@ -82,10 +82,10 @@ ] ], "meta": { - "nf-test": "0.8.4", - "nextflow": "24.02.0" + "nf-test": "0.9.0", + "nextflow": "24.04.4" }, - "timestamp": "2024-04-29T11:31:57.107814635" + "timestamp": "2024-09-24T16:41:59.329131636" }, "concat": { "content": [ @@ -101,8 +101,8 @@ "PosCon1/PosCon1.vcf.gz.tbi", "PosCon1/PosCon1.wisecondorx_aberrations.bed", "PosCon1/PosCon1.wisecondorx_bins.bed", - "PosCon1/PosCon1.wisecondorx_chr_statistics.txt", "PosCon1/PosCon1.wisecondorx_segments.bed", + "PosCon1/PosCon1.wisecondorx_statistics.txt", "PosCon1/chr1.png", "PosCon1/chr22.png", "PosCon1/genome_wide.png", @@ -115,8 +115,8 @@ "PosCon2/PosCon2.vcf.gz.tbi", "PosCon2/PosCon2.wisecondorx_aberrations.bed", "PosCon2/PosCon2.wisecondorx_bins.bed", - "PosCon2/PosCon2.wisecondorx_chr_statistics.txt", "PosCon2/PosCon2.wisecondorx_segments.bed", + "PosCon2/PosCon2.wisecondorx_statistics.txt", "PosCon2/chr1.png", "PosCon2/chr22.png", "PosCon2/genome_wide.png", @@ -129,8 +129,8 @@ "PosCon3/PosCon3.vcf.gz.tbi", "PosCon3/PosCon3.wisecondorx_aberrations.bed", "PosCon3/PosCon3.wisecondorx_bins.bed", - "PosCon3/PosCon3.wisecondorx_chr_statistics.txt", "PosCon3/PosCon3.wisecondorx_segments.bed", + "PosCon3/PosCon3.wisecondorx_statistics.txt", "PosCon3/chr1.png", "PosCon3/chr22.png", "PosCon3/genome_wide.png", @@ -143,8 +143,8 @@ "PosCon4/PosCon4.vcf.gz.tbi", "PosCon4/PosCon4.wisecondorx_aberrations.bed", "PosCon4/PosCon4.wisecondorx_bins.bed", - "PosCon4/PosCon4.wisecondorx_chr_statistics.txt", "PosCon4/PosCon4.wisecondorx_segments.bed", + "PosCon4/PosCon4.wisecondorx_statistics.txt", "PosCon4/chr1.png", "PosCon4/chr22.png", "PosCon4/genome_wide.png", @@ -154,10 +154,10 @@ ] ], "meta": { - "nf-test": "0.8.4", - "nextflow": "24.02.0" + "nf-test": "0.9.0", + "nextflow": "24.04.4" }, - "timestamp": "2024-04-29T11:33:35.756593527" + "timestamp": "2024-09-24T16:43:30.360357399" }, "output callers": { "content": [ @@ -191,8 +191,8 @@ "PosCon1/wisecondorx/PosCon1.wisecondorx.vcf.gz.tbi", "PosCon1/wisecondorx/PosCon1.wisecondorx_aberrations.bed", "PosCon1/wisecondorx/PosCon1.wisecondorx_bins.bed", - "PosCon1/wisecondorx/PosCon1.wisecondorx_chr_statistics.txt", "PosCon1/wisecondorx/PosCon1.wisecondorx_segments.bed", + "PosCon1/wisecondorx/PosCon1.wisecondorx_statistics.txt", "PosCon1/wisecondorx/chr1.png", "PosCon1/wisecondorx/chr22.png", "PosCon1/wisecondorx/genome_wide.png", @@ -222,8 +222,8 @@ "PosCon2/wisecondorx/PosCon2.wisecondorx.vcf.gz.tbi", "PosCon2/wisecondorx/PosCon2.wisecondorx_aberrations.bed", "PosCon2/wisecondorx/PosCon2.wisecondorx_bins.bed", - "PosCon2/wisecondorx/PosCon2.wisecondorx_chr_statistics.txt", "PosCon2/wisecondorx/PosCon2.wisecondorx_segments.bed", + "PosCon2/wisecondorx/PosCon2.wisecondorx_statistics.txt", "PosCon2/wisecondorx/chr1.png", "PosCon2/wisecondorx/chr22.png", "PosCon2/wisecondorx/genome_wide.png", @@ -253,8 +253,8 @@ "PosCon3/wisecondorx/PosCon3.wisecondorx.vcf.gz.tbi", "PosCon3/wisecondorx/PosCon3.wisecondorx_aberrations.bed", "PosCon3/wisecondorx/PosCon3.wisecondorx_bins.bed", - "PosCon3/wisecondorx/PosCon3.wisecondorx_chr_statistics.txt", "PosCon3/wisecondorx/PosCon3.wisecondorx_segments.bed", + "PosCon3/wisecondorx/PosCon3.wisecondorx_statistics.txt", "PosCon3/wisecondorx/chr1.png", "PosCon3/wisecondorx/chr22.png", "PosCon3/wisecondorx/genome_wide.png", @@ -284,8 +284,8 @@ "PosCon4/wisecondorx/PosCon4.wisecondorx.vcf.gz.tbi", "PosCon4/wisecondorx/PosCon4.wisecondorx_aberrations.bed", "PosCon4/wisecondorx/PosCon4.wisecondorx_bins.bed", - "PosCon4/wisecondorx/PosCon4.wisecondorx_chr_statistics.txt", "PosCon4/wisecondorx/PosCon4.wisecondorx_segments.bed", + "PosCon4/wisecondorx/PosCon4.wisecondorx_statistics.txt", "PosCon4/wisecondorx/chr1.png", "PosCon4/wisecondorx/chr22.png", "PosCon4/wisecondorx/genome_wide.png", @@ -294,9 +294,9 @@ ] ], "meta": { - "nf-test": "0.8.4", - "nextflow": "24.02.0" + "nf-test": "0.9.0", + "nextflow": "24.04.4" }, - "timestamp": "2024-04-29T11:47:12.295054901" + "timestamp": "2024-09-24T16:45:01.53178248" } } \ No newline at end of file diff --git a/tests/pipeline/cnv/cnv.nf.test.snap b/tests/pipeline/cnv/cnv.nf.test.snap index 70503973..d5275417 100644 --- a/tests/pipeline/cnv/cnv.nf.test.snap +++ b/tests/pipeline/cnv/cnv.nf.test.snap @@ -14,8 +14,8 @@ "PosCon1.qdnaseq_segments.txt", "PosCon1.wisecondorx_aberrations.bed", "PosCon1.wisecondorx_bins.bed", - "PosCon1.wisecondorx_chr_statistics.txt", "PosCon1.wisecondorx_segments.bed", + "PosCon1.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -30,8 +30,8 @@ "PosCon2.qdnaseq_segments.txt", "PosCon2.wisecondorx_aberrations.bed", "PosCon2.wisecondorx_bins.bed", - "PosCon2.wisecondorx_chr_statistics.txt", "PosCon2.wisecondorx_segments.bed", + "PosCon2.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -46,8 +46,8 @@ "PosCon3.qdnaseq_segments.txt", "PosCon3.wisecondorx_aberrations.bed", "PosCon3.wisecondorx_bins.bed", - "PosCon3.wisecondorx_chr_statistics.txt", "PosCon3.wisecondorx_segments.bed", + "PosCon3.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -62,8 +62,8 @@ "PosCon4.qdnaseq_segments.txt", "PosCon4.wisecondorx_aberrations.bed", "PosCon4.wisecondorx_bins.bed", - "PosCon4.wisecondorx_chr_statistics.txt", "PosCon4.wisecondorx_segments.bed", + "PosCon4.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -85,10 +85,10 @@ ] ], "meta": { - "nf-test": "0.8.4", - "nextflow": "24.02.0" + "nf-test": "0.9.0", + "nextflow": "24.04.4" }, - "timestamp": "2024-03-13T11:31:18.794715638" + "timestamp": "2024-09-24T15:39:21.55695905" }, "qdnaseq": { "content": [ diff --git a/tests/pipeline/duplicates/duplicates.nf.test.snap b/tests/pipeline/duplicates/duplicates.nf.test.snap index 5201b0a3..c31188fe 100644 --- a/tests/pipeline/duplicates/duplicates.nf.test.snap +++ b/tests/pipeline/duplicates/duplicates.nf.test.snap @@ -14,8 +14,8 @@ "PosCon1.sv.vcf.gz.tbi", "PosCon1.wisecondorx_aberrations.bed", "PosCon1.wisecondorx_bins.bed", - "PosCon1.wisecondorx_chr_statistics.txt", "PosCon1.wisecondorx_segments.bed", + "PosCon1.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png" @@ -29,8 +29,8 @@ "PosCon3.sv.vcf.gz.tbi", "PosCon3.wisecondorx_aberrations.bed", "PosCon3.wisecondorx_bins.bed", - "PosCon3.wisecondorx_chr_statistics.txt", "PosCon3.wisecondorx_segments.bed", + "PosCon3.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png" @@ -49,9 +49,9 @@ ] ], "meta": { - "nf-test": "0.8.4", - "nextflow": "24.02.0" + "nf-test": "0.9.0", + "nextflow": "24.04.4" }, - "timestamp": "2024-03-29T10:27:33.692986213" + "timestamp": "2024-09-24T16:47:37.185956628" } } \ No newline at end of file diff --git a/tests/pipeline/families/families.nf.test.snap b/tests/pipeline/families/families.nf.test.snap index 263a8889..b1b2f503 100644 --- a/tests/pipeline/families/families.nf.test.snap +++ b/tests/pipeline/families/families.nf.test.snap @@ -14,8 +14,8 @@ "PosCon1.vcf.gz.tbi", "PosCon1.wisecondorx_aberrations.bed", "PosCon1.wisecondorx_bins.bed", - "PosCon1.wisecondorx_chr_statistics.txt", "PosCon1.wisecondorx_segments.bed", + "PosCon1.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -30,8 +30,8 @@ "PosCon2.vcf.gz.tbi", "PosCon2.wisecondorx_aberrations.bed", "PosCon2.wisecondorx_bins.bed", - "PosCon2.wisecondorx_chr_statistics.txt", "PosCon2.wisecondorx_segments.bed", + "PosCon2.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -46,8 +46,8 @@ "PosCon3.vcf.gz.tbi", "PosCon3.wisecondorx_aberrations.bed", "PosCon3.wisecondorx_bins.bed", - "PosCon3.wisecondorx_chr_statistics.txt", "PosCon3.wisecondorx_segments.bed", + "PosCon3.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -73,10 +73,10 @@ ] ], "meta": { - "nf-test": "0.8.4", - "nextflow": "24.02.0" + "nf-test": "0.9.0", + "nextflow": "24.04.4" }, - "timestamp": "2024-03-13T12:12:35.02840081" + "timestamp": "2024-09-24T16:52:33.169204996" }, "family with 2 samples + 1 sample - no concat": { "content": [ @@ -97,8 +97,8 @@ "PosCon1.sv.vcf.gz.tbi", "PosCon1.wisecondorx_aberrations.bed", "PosCon1.wisecondorx_bins.bed", - "PosCon1.wisecondorx_chr_statistics.txt", "PosCon1.wisecondorx_segments.bed", + "PosCon1.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -117,8 +117,8 @@ "PosCon2.sv.vcf.gz.tbi", "PosCon2.wisecondorx_aberrations.bed", "PosCon2.wisecondorx_bins.bed", - "PosCon2.wisecondorx_chr_statistics.txt", "PosCon2.wisecondorx_segments.bed", + "PosCon2.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -137,8 +137,8 @@ "PosCon3.sv.vcf.gz.tbi", "PosCon3.wisecondorx_aberrations.bed", "PosCon3.wisecondorx_bins.bed", - "PosCon3.wisecondorx_chr_statistics.txt", "PosCon3.wisecondorx_segments.bed", + "PosCon3.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -168,10 +168,10 @@ ] ], "meta": { - "nf-test": "0.8.4", - "nextflow": "24.02.0" + "nf-test": "0.9.0", + "nextflow": "24.04.4" }, - "timestamp": "2024-03-29T09:51:16.761133108" + "timestamp": "2024-09-24T16:51:21.534179791" }, "family with 3 samples - no concat": { "content": [ @@ -192,8 +192,8 @@ "PosCon1.sv.vcf.gz.tbi", "PosCon1.wisecondorx_aberrations.bed", "PosCon1.wisecondorx_bins.bed", - "PosCon1.wisecondorx_chr_statistics.txt", "PosCon1.wisecondorx_segments.bed", + "PosCon1.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -212,8 +212,8 @@ "PosCon2.sv.vcf.gz.tbi", "PosCon2.wisecondorx_aberrations.bed", "PosCon2.wisecondorx_bins.bed", - "PosCon2.wisecondorx_chr_statistics.txt", "PosCon2.wisecondorx_segments.bed", + "PosCon2.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -232,8 +232,8 @@ "PosCon3.sv.vcf.gz.tbi", "PosCon3.wisecondorx_aberrations.bed", "PosCon3.wisecondorx_bins.bed", - "PosCon3.wisecondorx_chr_statistics.txt", "PosCon3.wisecondorx_segments.bed", + "PosCon3.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -263,10 +263,10 @@ ] ], "meta": { - "nf-test": "0.8.4", - "nextflow": "24.02.0" + "nf-test": "0.9.0", + "nextflow": "24.04.4" }, - "timestamp": "2024-03-29T09:41:10.690402797" + "timestamp": "2024-09-24T16:48:52.81646932" }, "family with 3 samples - concat": { "content": [ @@ -283,8 +283,8 @@ "PosCon1.vcf.gz.tbi", "PosCon1.wisecondorx_aberrations.bed", "PosCon1.wisecondorx_bins.bed", - "PosCon1.wisecondorx_chr_statistics.txt", "PosCon1.wisecondorx_segments.bed", + "PosCon1.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -299,8 +299,8 @@ "PosCon2.vcf.gz.tbi", "PosCon2.wisecondorx_aberrations.bed", "PosCon2.wisecondorx_bins.bed", - "PosCon2.wisecondorx_chr_statistics.txt", "PosCon2.wisecondorx_segments.bed", + "PosCon2.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -315,8 +315,8 @@ "PosCon3.vcf.gz.tbi", "PosCon3.wisecondorx_aberrations.bed", "PosCon3.wisecondorx_bins.bed", - "PosCon3.wisecondorx_chr_statistics.txt", "PosCon3.wisecondorx_segments.bed", + "PosCon3.wisecondorx_statistics.txt", "chr1.png", "chr22.png", "genome_wide.png", @@ -342,9 +342,9 @@ ] ], "meta": { - "nf-test": "0.8.4", - "nextflow": "24.02.0" + "nf-test": "0.9.0", + "nextflow": "24.04.4" }, - "timestamp": "2024-03-13T12:02:09.935078056" + "timestamp": "2024-09-24T16:50:05.391092615" } } \ No newline at end of file diff --git a/tests/subworkflows/local/bam_variant_calling_wisecondorx/main.nf.test.snap b/tests/subworkflows/local/bam_variant_calling_wisecondorx/main.nf.test.snap index 5d870493..616d3e39 100644 --- a/tests/subworkflows/local/bam_variant_calling_wisecondorx/main.nf.test.snap +++ b/tests/subworkflows/local/bam_variant_calling_wisecondorx/main.nf.test.snap @@ -42,7 +42,7 @@ "sex": "male", "caller": "wisecondorx" }, - "test.wisecondorx_chr_statistics.txt:md5,d41d8cd98f00b204e9800998ecf8427e" + "test.wisecondorx_statistics.txt:md5,d41d8cd98f00b204e9800998ecf8427e" ] ], [ @@ -82,9 +82,9 @@ 0 ], "meta": { - "nf-test": "0.8.4", - "nextflow": "24.03.0" + "nf-test": "0.9.0", + "nextflow": "24.04.4" }, - "timestamp": "2024-05-06T15:54:06.8767855" + "timestamp": "2024-09-24T15:46:50.994448629" } } \ No newline at end of file