Merge branch 'master' into dp-biosample

dpark01 · web-flow · commit a7988520a7cd · 2021-09-24T08:55:12.000-04:00
diff --git a/pipes/WDL/tasks/tasks_sarscov2.wdl b/pipes/WDL/tasks/tasks_sarscov2.wdl
@@ -137,7 +137,7 @@ task pangolin_one_sample {
         Int?    min_length
         Float?  max_ambig
         Boolean inference_usher=true
-        String  docker = "quay.io/staphb/pangolin:3.1.11-pangolearn-2021-08-24"
+        String  docker = "quay.io/staphb/pangolin:3.1.11-pangolearn-2021-09-17"
     }
     String basename = basename(genome_fasta, ".fasta")
     command <<<
diff --git a/requirements-modules.txt b/requirements-modules.txt
@@ -7,5 +7,5 @@ broadinstitute/beast-beagle-cuda=1.10.5pre
 broadinstitute/ncbi-tools=2.10.7.10
 nextstrain/base=build-20210413T201712Z
 andersenlabapps/ivar=1.3.1
-quay.io/staphb/pangolin=3.1.11-pangolearn-2021-08-24
+quay.io/staphb/pangolin=3.1.11-pangolearn-2021-09-17
 nextstrain/nextclade=1.2.3

Original file line number	Diff line number	Diff line change
`@@ -137,7 +137,7 @@ task pangolin_one_sample {`
`137`	`137`	`Int? min_length`
`138`	`138`	`Float? max_ambig`
`139`	`139`	`Boolean inference_usher=true`
`140`		`- String docker = "quay.io/staphb/pangolin:3.1.11-pangolearn-2021-08-24"`
	`140`	`+ String docker = "quay.io/staphb/pangolin:3.1.11-pangolearn-2021-09-17"`
`141`	`141`	`}`
`142`	`142`	`String basename = basename(genome_fasta, ".fasta")`
`143`	`143`	`command <<<`