dragmap version was never reported

nf-core · Nov 13, 2022 · 9da7e76 · 9da7e76
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commit 9da7e76
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Showing 3 changed files with 12 additions and 11 deletions.
diff --git a/subworkflows/local/prepare_genome/main.nf b/subworkflows/local/prepare_genome/main.nf
@@ -102,6 +102,7 @@ workflow PREPARE_GENOME {
     ch_versions = ch_versions.mix(SAMTOOLS_FAIDX.out.versions)
     ch_versions = ch_versions.mix(BWAMEM1_INDEX.out.versions)
     ch_versions = ch_versions.mix(BWAMEM2_INDEX.out.versions)
+    ch_versions = ch_versions.mix(DRAGMAP_HASHTABLE.out.versions)
     ch_versions = ch_versions.mix(GATK4_CREATESEQUENCEDICTIONARY.out.versions)
     ch_versions = ch_versions.mix(MSISENSORPRO_SCAN.out.versions)
     ch_versions = ch_versions.mix(TABIX_DBSNP.out.versions)

diff --git a/tests/test_gatk4_spark.yml b/tests/test_gatk4_spark.yml
@@ -12,15 +12,15 @@
       md5sum: 2d29d9e53894dcce96a1b5beb6ef3312
     - path: results/multiqc
     - path: results/preprocessing/markduplicates/test/test.md.cram
-      md5sum: cf0ebfe288ee7164cd2fcd028bda1887
+      md5sum: b1338daf0d2f85c42fdc1bf12764bcae
     - path: results/preprocessing/markduplicates/test/test.md.cram.crai
-      md5sum: 2136b37eca3e806c77c39ee823231679
+      md5sum: 4f249f7b2492c37fd2186b02f7e5b03c
     - path: results/preprocessing/recal_table/test/test.recal.table
       md5sum: 5b6e5078b4a90f6cb982fa0f0df616c2
     - path: results/preprocessing/recalibrated/test/test.recal.cram
-      md5sum: 1c168110f006bacba2ed8783bb5a3dee
+      md5sum: f56bee4375f79298fbdcdc2b3a5f2013
     - path: results/preprocessing/recalibrated/test/test.recal.cram.crai
-      md5sum: 1c91543c9f75bc354274b1a1da745ee3
+      md5sum: 1441e62e7cff530cb71df158693651c7
     - path: results/reports/fastqc/test-test_L1
     - path: results/reports/markduplicates/test/test.md.cram.metrics
     # The text-based output-file test.md.cram.metrics only contains comments and no metrics, which is a bit odd.
@@ -63,15 +63,15 @@
     - path: results/csv/recalibrated.csv
       md5sum: 2d29d9e53894dcce96a1b5beb6ef3312
     - path: results/preprocessing/markduplicates/test/test.md.cram
-      md5sum: cf0ebfe288ee7164cd2fcd028bda1887
+      md5sum: b1338daf0d2f85c42fdc1bf12764bcae
     - path: results/preprocessing/markduplicates/test/test.md.cram.crai
-      md5sum: 2136b37eca3e806c77c39ee823231679
+      md5sum: 4f249f7b2492c37fd2186b02f7e5b03c
     - path: results/preprocessing/recal_table/test/test.recal.table
       md5sum: 5b6e5078b4a90f6cb982fa0f0df616c2
     - path: results/preprocessing/recalibrated/test/test.recal.cram
-      md5sum: 1c168110f006bacba2ed8783bb5a3dee
+      md5sum: f56bee4375f79298fbdcdc2b3a5f2013
     - path: results/preprocessing/recalibrated/test/test.recal.cram.crai
-      md5sum: 1c91543c9f75bc354274b1a1da745ee3
+      md5sum: 1441e62e7cff530cb71df158693651c7
     - path: results/multiqc
       should_exist: false
     - path: results/reports/fastqc

diff --git a/tests/test_haplotypecaller.yml b/tests/test_haplotypecaller.yml
@@ -17,7 +17,7 @@
     - path: results/preprocessing/recalibrated/test/test.recal.cram.crai
       should_exist: false
     - path: results/reports/bcftools/haplotypecaller/test/test.haplotypecaller.filtered.bcftools_stats.txt
-      md5sum: f9cc3809106a42601eafd3b09900750a
+      md5sum: 81df44406e8c015ba45be5cbf53760c8
     - path: results/reports/vcftools/haplotypecaller/test/test.haplotypecaller.filtered.FILTER.summary
       md5sum: 4e2ceea7f3ff998004691fd71192d9ee
     - path: results/reports/vcftools/haplotypecaller/test/test.haplotypecaller.filtered.TsTv.count
@@ -60,7 +60,7 @@
     - path: results/preprocessing/recalibrated/test/test.recal.cram.crai
       should_exist: false
     - path: results/reports/bcftools/haplotypecaller/test/test.haplotypecaller.filtered.bcftools_stats.txt
-      md5sum: f9cc3809106a42601eafd3b09900750a
+      md5sum: 81df44406e8c015ba45be5cbf53760c8
     - path: results/reports/vcftools/haplotypecaller/test/test.haplotypecaller.filtered.FILTER.summary
       md5sum: 4e2ceea7f3ff998004691fd71192d9ee
     - path: results/reports/vcftools/haplotypecaller/test/test.haplotypecaller.filtered.TsTv.count
@@ -92,7 +92,7 @@
     - path: results/preprocessing/recalibrated/test/test.recal.cram.crai
       should_exist: false
     - path: results/reports/bcftools/haplotypecaller/joint_variant_calling/joint_germline.bcftools_stats.txt
-      md5sum: f91f185319e00108870911e0ce1a7ed6
+      md5sum: 86b04ea7a8c3c4b8d217a42e868a4f46
     - path: results/reports/vcftools/haplotypecaller/joint_variant_calling/joint_germline.FILTER.summary
       md5sum: 2a4eb7abfb2e64e45d53fdda17530b7f
     - path: results/reports/vcftools/haplotypecaller/joint_variant_calling/joint_germline.TsTv.count