bump viral-classify 2.2.4.2 -> 2.2.5 (#568)

broadinstitute · Nov 6, 2024 · e911395 · e911395
1 parent e498352
commit e911395
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Showing 6 changed files with 15 additions and 15 deletions.
diff --git a/pipes/WDL/tasks/tasks_megablast.wdl b/pipes/WDL/tasks/tasks_megablast.wdl
@@ -79,7 +79,7 @@ task lca_megablast {
         Int     cpu            = 16
         Int     disk_size_gb   = 300
 
-        String  docker         = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+        String  docker         = "quay.io/broadinstitute/viral-classify:2.2.5"
     }
     parameter_meta {
         trimmed_fasta: {

diff --git a/pipes/WDL/tasks/tasks_metagenomics.wdl b/pipes/WDL/tasks/tasks_metagenomics.wdl
@@ -218,7 +218,7 @@ task kraken2 {
     Int?   min_base_qual
 
     Int    machine_mem_gb = 90
-    String docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
 
   parameter_meta {
@@ -345,7 +345,7 @@ task report_primary_kraken_taxa {
     File          kraken_summary_report
     String        focal_taxon = "Viruses"
 
-    String        docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String        docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
   String out_basename = basename(kraken_summary_report, '.txt')
   Int disk_size = 50
@@ -396,7 +396,7 @@ task filter_refs_to_found_taxa {
     File          taxdump_tgz
     Int           min_read_count = 100
 
-    String        docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String        docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
   String ref_basename = basename(taxid_to_ref_accessions_tsv, '.tsv')
   String hits_basename = basename(focal_report_tsv, '.tsv')
@@ -447,7 +447,7 @@ task build_kraken2_db {
     Int?          zstd_compression_level
 
     Int           machine_mem_gb = 100
-    String        docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String        docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
 
   Int disk_size = 750
@@ -589,7 +589,7 @@ task blastx {
     File   krona_taxonomy_db_tgz
 
     Int    machine_mem_gb = 8
-    String docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
 
   parameter_meta {
@@ -679,7 +679,7 @@ task krona {
     Int?         magnitude_column
 
     Int          machine_mem_gb = 3
-    String       docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String       docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
 
   Int disk_size = 50
@@ -786,7 +786,7 @@ task filter_bam_to_taxa {
     String         out_filename_suffix = "filtered"
 
     Int            machine_mem_gb = 26
-    String         docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String         docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
 
   String out_basename = basename(classified_bam, ".bam") + "." + out_filename_suffix
@@ -873,7 +873,7 @@ task kaiju {
     File   krona_taxonomy_db_tgz  # taxonomy/taxonomy.tab
 
     Int    machine_mem_gb = 100
-    String docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
 
   String   input_basename = basename(reads_unmapped_bam, ".bam")

diff --git a/pipes/WDL/tasks/tasks_ncbi.wdl b/pipes/WDL/tasks/tasks_ncbi.wdl
@@ -1108,7 +1108,7 @@ task sequence_rename_by_species {
     String taxid
     File   taxdump_tgz
 
-    String docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
   command <<<
     set -e

diff --git a/pipes/WDL/tasks/tasks_reports.wdl b/pipes/WDL/tasks/tasks_reports.wdl
@@ -551,7 +551,7 @@ task aggregate_metagenomics_reports {
     String       aggregate_taxlevel_focus                 = "species"
     Int          aggregate_top_N_hits                     = 5
 
-    String       docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String       docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
 
   parameter_meta {

diff --git a/pipes/WDL/tasks/tasks_taxon_filter.wdl b/pipes/WDL/tasks/tasks_taxon_filter.wdl
@@ -14,7 +14,7 @@ task deplete_taxa {
 
     Int          cpu = 8
     Int          machine_mem_gb = 15
-    String       docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String       docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
 
   parameter_meta {
@@ -113,7 +113,7 @@ task filter_to_taxon {
     String   neg_control_prefixes_space_separated = "neg water NTC"
 
     Int      machine_mem_gb = 15
-    String   docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String   docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
 
   # do this in two steps in case the input doesn't actually have "cleaned" in the name
@@ -172,7 +172,7 @@ task build_lastal_db {
     File   sequences_fasta
 
     Int    machine_mem_gb = 7
-    String docker = "quay.io/broadinstitute/viral-classify:2.2.4.2"
+    String docker = "quay.io/broadinstitute/viral-classify:2.2.5"
   }
 
   String db_name = basename(sequences_fasta, ".fasta")

diff --git a/requirements-modules.txt b/requirements-modules.txt
@@ -1,6 +1,6 @@
 broadinstitute/viral-core=2.4.0
 broadinstitute/viral-assemble=2.3.6.1
-broadinstitute/viral-classify=2.2.4.2
+broadinstitute/viral-classify=2.2.5
 broadinstitute/viral-phylo=2.3.6.0
 broadinstitute/py3-bio=0.1.2
 broadinstitute/beast-beagle-cuda=1.10.5pre