Merge pull request #434 from broadinstitute/pangolin

bump pangolin to 4.1.2-1.14 and nextclade to 2.5.0
broadinstitute · Sep 14, 2022 · 6f434e9 · 6f434e9
2 parents 39b4e77 + f2271ae
commit 6f434e9
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Showing 3 changed files with 6 additions and 6 deletions.
diff --git a/pipes/WDL/tasks/tasks_nextstrain.wdl b/pipes/WDL/tasks/tasks_nextstrain.wdl
@@ -13,7 +13,7 @@ task nextclade_one_sample {
         File? pcr_primers_csv
         File? virus_properties
         String? dataset_name
-        String docker = "nextstrain/nextclade:2.3.0"
+        String docker = "nextstrain/nextclade:2.5.0"
     }
     String basename = basename(genome_fasta, ".fasta")
     command {
@@ -98,7 +98,7 @@ task nextclade_many_samples {
         String?      dataset_name
         String       basename
         File?        genome_ids_setdefault_blank
-        String       docker = "nextstrain/nextclade:2.3.0"
+        String       docker = "nextstrain/nextclade:2.5.0"
     }
     command <<<
         set -e

diff --git a/pipes/WDL/tasks/tasks_sarscov2.wdl b/pipes/WDL/tasks/tasks_sarscov2.wdl
@@ -10,7 +10,7 @@ task pangolin_one_sample {
         Float?  max_ambig
         String? analysis_mode
         Boolean update_dbs_now=false
-        String  docker = "quay.io/staphb/pangolin:4.1.1-pdata-1.11"
+        String  docker = "quay.io/staphb/pangolin:4.1.2-pdata-1.14"
     }
     String basename = basename(genome_fasta, ".fasta")
     command <<<
@@ -91,7 +91,7 @@ task pangolin_many_samples {
         String?      analysis_mode
         Boolean      update_dbs_now=false
         String       basename
-        String       docker = "quay.io/staphb/pangolin:4.1.1-pdata-1.11"
+        String       docker = "quay.io/staphb/pangolin:4.1.2-pdata-1.14"
     }
     command <<<
         set -ex

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-20211012T204409Z
 andersenlabapps/ivar=1.3.1
-quay.io/staphb/pangolin=4.1.1-pdata-1.11
-nextstrain/nextclade=2.3.0
+quay.io/staphb/pangolin=4.1.2-pdata-1.14
+nextstrain/nextclade=2.5.0