update default amrfinderplus docker image to v3.11.20 and db 2023-09-…

…26.1 (theiagen#229) * update default amrfinderplus docker image to v3.11.20 and db 2023-09-26.1 * update CI
DOH-HNH0303 · Nov 3, 2023 · 5fc24ee · 5fc24ee
1 parent 1023eb0
commit 5fc24ee
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Showing 3 changed files with 9 additions and 11 deletions.
diff --git a/tasks/gene_typing/task_amrfinderplus.wdl b/tasks/gene_typing/task_amrfinderplus.wdl
@@ -12,7 +12,7 @@ task amrfinderplus_nuc {
     Float? mincov
     Boolean detailed_drug_class = false
     Int cpu = 4
-    String docker = "us-docker.pkg.dev/general-theiagen/staphb/ncbi-amrfinderplus:3.11.11-2023-04-17.1"
+    String docker = "us-docker.pkg.dev/general-theiagen/staphb/ncbi-amrfinderplus:3.11.20-2023-09-26.1"
     Int disk_size = 100
     Int memory = 16
     Boolean hide_point_mutations = false

diff --git a/tests/workflows/theiaprok/test_wf_theiaprok_illumina_pe.yml b/tests/workflows/theiaprok/test_wf_theiaprok_illumina_pe.yml
@@ -30,9 +30,9 @@
     - path: miniwdl_run/call-amrfinderplus_task/task.log
       contains: ["wdl", "theiaprok_illumina_pe", "amrfinderplus", "done"]
     - path: miniwdl_run/call-amrfinderplus_task/work/AMRFINDER_DB_VERSION
-      md5sum: 2323ca08d3132d198a68e637becea3db
+      md5sum: 54ebef28014734172bfeeb798d0e7873
     - path: miniwdl_run/call-amrfinderplus_task/work/AMRFINDER_VERSION
-      md5sum: df6b62b3e5679b365be6644e8b4882d3
+      md5sum: 8e8e52e7e47bb3f44f866b41fe825422
     - path: miniwdl_run/call-amrfinderplus_task/work/AMR_CLASSES
       md5sum: b6017eebef847ac2471107ca6197b5c5
     - path: miniwdl_run/call-amrfinderplus_task/work/AMR_CORE_GENES
@@ -552,7 +552,7 @@
     - path: miniwdl_run/wdl/tasks/gene_typing/task_abricate.wdl
       md5sum: 8ea4befaa7a09b0def8d033cb9b806d1
     - path: miniwdl_run/wdl/tasks/gene_typing/task_amrfinderplus.wdl
-      md5sum: 6d851255fd3132c8ecda764cb2bc0911
+      md5sum: 249db321d15832002c4945394ae9af76
     - path: miniwdl_run/wdl/tasks/gene_typing/task_bakta.wdl
       md5sum: 0bed8fb60786095843a67b1ad03051dc
     - path: miniwdl_run/wdl/tasks/gene_typing/task_plasmidfinder.wdl
@@ -624,7 +624,7 @@
     - path: miniwdl_run/wdl/tasks/species_typing/task_ts_mlst.wdl
       md5sum: d49ae0b02e798af0636eb2721bb434b4
     - path: miniwdl_run/wdl/tasks/task_versioning.wdl
-      md5sum: 9c02b95d23a602d9842fdeac883037b1
+      md5sum: 3469cf6787f279ffa81fa50f6257fcd7
     - path: miniwdl_run/wdl/tasks/taxon_id/task_gambit.wdl
       md5sum: 08987d952c67c6ff6debf6898af15f9a
     - path: miniwdl_run/wdl/tasks/taxon_id/task_kraken2.wdl

diff --git a/tests/workflows/theiaprok/test_wf_theiaprok_illumina_se.yml b/tests/workflows/theiaprok/test_wf_theiaprok_illumina_se.yml
@@ -30,11 +30,9 @@
     - path: miniwdl_run/call-amrfinderplus_task/task.log
       contains: ["wdl", "theiaprok_illumina_se", "amrfinderplus", "done"]
     - path: miniwdl_run/call-amrfinderplus_task/work/AMRFINDER_DB_VERSION
-      md5sum: 2323ca08d3132d198a68e637becea3db
-      md5sum: 2323ca08d3132d198a68e637becea3db
+      md5sum: 54ebef28014734172bfeeb798d0e7873
     - path: miniwdl_run/call-amrfinderplus_task/work/AMRFINDER_VERSION
-      md5sum: df6b62b3e5679b365be6644e8b4882d3
-      md5sum: df6b62b3e5679b365be6644e8b4882d3
+      md5sum: 8e8e52e7e47bb3f44f866b41fe825422
     - path: miniwdl_run/call-amrfinderplus_task/work/AMR_CLASSES
       md5sum: b6017eebef847ac2471107ca6197b5c5
     - path: miniwdl_run/call-amrfinderplus_task/work/AMR_CORE_GENES
@@ -522,7 +520,7 @@
     - path: miniwdl_run/wdl/tasks/gene_typing/task_abricate.wdl
       md5sum: 8ea4befaa7a09b0def8d033cb9b806d1
     - path: miniwdl_run/wdl/tasks/gene_typing/task_amrfinderplus.wdl
-      md5sum: 6d851255fd3132c8ecda764cb2bc0911
+      md5sum: 249db321d15832002c4945394ae9af76
     - path: miniwdl_run/wdl/tasks/gene_typing/task_bakta.wdl
       md5sum: 0bed8fb60786095843a67b1ad03051dc
     - path: miniwdl_run/wdl/tasks/gene_typing/task_plasmidfinder.wdl
@@ -592,7 +590,7 @@
     - path: miniwdl_run/wdl/tasks/species_typing/task_ts_mlst.wdl
       md5sum: d49ae0b02e798af0636eb2721bb434b4
     - path: miniwdl_run/wdl/tasks/task_versioning.wdl
-      md5sum: 9c02b95d23a602d9842fdeac883037b1
+      md5sum: 3469cf6787f279ffa81fa50f6257fcd7
     - path: miniwdl_run/wdl/tasks/taxon_id/task_gambit.wdl
       md5sum: 08987d952c67c6ff6debf6898af15f9a
     - path: miniwdl_run/wdl/tasks/taxon_id/task_kraken2.wdl