updated test_aligner_minimap2.yml to match others

nf-core · May 30, 2024 · 7f628f5 · 7f628f5
1 parent af4e486
commit 7f628f5
Showing 1 changed file with 7 additions and 23 deletions.
diff --git a/tests/test_aligner_minimap2.yml b/tests/test_aligner_minimap2.yml
@@ -1,4 +1,4 @@
-- name: Run minimap2
+name: Run minimap2
   command: nextflow run main.nf -profile test --aligner minimap2 --save_reference --outdir results
   tags:
     - aligner
@@ -24,20 +24,12 @@
     # binary changes md5sums on reruns
     - path: results/reference/minimap2/genome.mmi
       md5sum: 26530ed9abe1f1318efe2b2cf3c84eb8
-    - path: results/reference/dbsnp/dbsnp_146.hg38.vcf.gz.tbi
-    # conda changes md5sums for test
-    - path: results/reference/dict/genome.dict
-      md5sum: 2433fe2ba31257337bf4c4bd4cb8da15
-    - path: results/reference/fai/genome.fasta.fai
-      md5sum: 3520cd30e1b100e55f578db9c855f685
     - path: results/reference/intervals/chr22_1-40001.bed
       md5sum: 87a15eb9c2ff20ccd5cd8735a28708f7
     - path: results/reference/intervals/chr22_1-40001.bed.gz
       md5sum: d3341fa28986c40b24fcc10a079dbb80
     - path: results/reference/intervals/genome.bed
       md5sum: a87dc7d20ebca626f65cc16ff6c97a3e
-    - path: results/reference/known_indels/mills_and_1000G.indels.vcf.gz.tbi
-    # conda changes md5sums for test
     - path: results/reports/fastqc/test-test_L1
     - path: results/reports/markduplicates/test/test.md.cram.metrics
       contains: ["test	5324	142	162	1061336	3324	2	0	0.593438	4993", "1.0	0.999998	138"]
@@ -52,21 +44,21 @@
     - path: results/reports/mosdepth/test/test.md.regions.bed.gz.csi
       md5sum: 99573817f440d12374d6eadd0241ee07
     - path: results/reports/mosdepth/test/test.recal.mosdepth.global.dist.txt
-      md5sum: 0a9284c1496efd6fc7ce79f12c0ec7a0
     - path: results/reports/mosdepth/test/test.recal.mosdepth.region.dist.txt
-      md5sum: f2dae85c8e57dd3c00fc6be0dc860a4d
     - path: results/reports/mosdepth/test/test.recal.mosdepth.summary.txt
-      md5sum: 0714422bef83371c37087bddbdae2485
     - path: results/reports/mosdepth/test/test.recal.regions.bed.gz
-      md5sum: e8cee27a1207c13ee7b54a330a593d04
     - path: results/reports/mosdepth/test/test.recal.regions.bed.gz.csi
-      md5sum: 99573817f440d12374d6eadd0241ee07
+    - path: results/reports/mosdepth/test/test.recal.mosdepth.global.dist.txt
+    - path: results/reports/mosdepth/test/test.recal.mosdepth.region.dist.txt
+    - path: results/reports/mosdepth/test/test.recal.mosdepth.summary.txt
+    - path: results/reports/mosdepth/test/test.recal.regions.bed.gz
+    - path: results/reports/mosdepth/test/test.recal.regions.bed.gz.csi
     - path: results/reports/samtools/test/test.md.cram.stats
     # conda changes md5sums for test
     - path: results/reports/samtools/test/test.recal.cram.stats
     # conda changes md5sums for test
 - name: Build only index with minimap2
-  command: nextflow run main.nf -profile test_cache --build_only_index --aligner minimap2 --input false --outdir results
+  command: nextflow run main.nf -profile test --build_only_index --aligner minimap2 --input false --outdir results
   tags:
     - aligner
     - build_only_index
@@ -75,17 +67,9 @@
     - path: results/multiqc
     - path: results/reference/minimap2/genome.mmi
       md5sum: 26530ed9abe1f1318efe2b2cf3c84eb8
-    - path: results/reference/dbsnp/dbsnp_146.hg38.vcf.gz.tbi
-    # conda changes md5sums for test
-    - path: results/reference/dict/genome.dict
-      md5sum: 2433fe2ba31257337bf4c4bd4cb8da15
-    - path: results/reference/fai/genome.fasta.fai
-      md5sum: 3520cd30e1b100e55f578db9c855f685
     - path: results/reference/intervals/chr22_1-40001.bed
       md5sum: 87a15eb9c2ff20ccd5cd8735a28708f7
     - path: results/reference/intervals/chr22_1-40001.bed.gz
       md5sum: d3341fa28986c40b24fcc10a079dbb80
     - path: results/reference/intervals/genome.bed
       md5sum: a87dc7d20ebca626f65cc16ff6c97a3e
-    - path: results/reference/known_indels/mills_and_1000G.indels.vcf.gz.tbi
-    # conda changes md5sums for test