bump odgi modules to v0.8.3 (nf-core#3805)

* bump odgi modules v0.8.3 * fix linting error * fix galaxy container
adamrtalbot · Sep 4, 2023 · 2d8f8fd · 2d8f8fd
1 parent 96fadda
commit 2d8f8fd
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Showing 10 changed files with 28 additions and 28 deletions.
diff --git a/modules/nf-core/odgi/build/main.nf b/modules/nf-core/odgi/build/main.nf
@@ -2,10 +2,10 @@ process ODGI_BUILD {
     tag "$meta.id"
     label 'process_medium'
 
-    conda "bioconda::odgi=0.8.2"
+    conda "bioconda::odgi=0.8.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/odgi:0.8.2--py310hc8f18ef_0':
-        'biocontainers/odgi:0.8.2--py310hc8f18ef_0' }"
+        'https://depot.galaxyproject.org/singularity/odgi:0.8.3--py310h6cc9453_0':
+        'biocontainers/odgi:0.8.3--py310h6cc9453_0' }"
 
     input:
     tuple val(meta), path(graph)

diff --git a/modules/nf-core/odgi/draw/main.nf b/modules/nf-core/odgi/draw/main.nf
@@ -2,10 +2,10 @@ process ODGI_DRAW {
     tag "$meta.id"
     label 'process_single'
 
-    conda "bioconda::odgi=0.8.2"
+    conda "bioconda::odgi=0.8.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/odgi:0.8.2--py310hc8f18ef_0':
-        'biocontainers/odgi:0.8.2--py310hc8f18ef_0' }"
+        'https://depot.galaxyproject.org/singularity/odgi:0.8.3--py310h6cc9453_0':
+        'biocontainers/odgi:0.8.3--py310h6cc9453_0' }"
 
     input:
     tuple val(meta), path(graph), path(lay)

diff --git a/modules/nf-core/odgi/layout/main.nf b/modules/nf-core/odgi/layout/main.nf
@@ -2,10 +2,10 @@ process ODGI_LAYOUT {
     tag "$meta.id"
     label 'process_medium'
 
-    conda "bioconda::odgi=0.8.2"
+    conda "bioconda::odgi=0.8.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/odgi:0.8.2--py310hc8f18ef_0':
-        'biocontainers/odgi:0.8.2--py310hc8f18ef_0' }"
+        'https://depot.galaxyproject.org/singularity/odgi:0.8.3--py310h6cc9453_0':
+        'biocontainers/odgi:0.8.3--py310h6cc9453_0' }"
 
     input:
     tuple val(meta), path(graph)

diff --git a/modules/nf-core/odgi/sort/main.nf b/modules/nf-core/odgi/sort/main.nf
@@ -2,10 +2,10 @@ process ODGI_SORT {
     tag "$meta.id"
     label 'process_high'
 
-    conda "bioconda::odgi=0.8.2"
+    conda "bioconda::odgi=0.8.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/odgi:0.8.2--py310hc8f18ef_0':
-        'biocontainers/odgi:0.8.2--py310hc8f18ef_0' }"
+        'https://depot.galaxyproject.org/singularity/odgi:0.8.3--py310h6cc9453_0':
+        'biocontainers/odgi:0.8.3--py310h6cc9453_0' }"
 
     input:
     tuple val(meta), path(graph)

diff --git a/modules/nf-core/odgi/squeeze/main.nf b/modules/nf-core/odgi/squeeze/main.nf
@@ -2,10 +2,10 @@ process ODGI_SQUEEZE {
     tag "$meta.id"
     label 'process_medium'
 
-    conda "bioconda::odgi=0.8.2"
+    conda "bioconda::odgi=0.8.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/odgi:0.8.2--py310hc8f18ef_0':
-        'biocontainers/odgi:0.8.2--py310hc8f18ef_0' }"
+        'https://depot.galaxyproject.org/singularity/odgi:0.8.3--py310h6cc9453_0':
+        'biocontainers/odgi:0.8.3--py310h6cc9453_0' }"
 
     input:
     tuple val(meta), path(graphs)

diff --git a/modules/nf-core/odgi/squeeze/meta.yml b/modules/nf-core/odgi/squeeze/meta.yml
@@ -21,7 +21,7 @@ input:
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
   - graphs:
-      type: files
+      type: file
       description: Pangenome graph files in ODGI format.
       pattern: "*.{og}"
 

diff --git a/modules/nf-core/odgi/stats/main.nf b/modules/nf-core/odgi/stats/main.nf
@@ -2,10 +2,10 @@ process ODGI_STATS {
     tag "$meta.id"
     label 'process_single'
 
-    conda "bioconda::odgi=0.8.2"
+    conda "bioconda::odgi=0.8.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/odgi:0.8.2--py310hc8f18ef_0':
-        'biocontainers/odgi:0.8.2--py310hc8f18ef_0' }"
+        'https://depot.galaxyproject.org/singularity/odgi:0.8.3--py310h6cc9453_0':
+        'biocontainers/odgi:0.8.3--py310h6cc9453_0' }"
 
     input:
     tuple val(meta), path(graph)

diff --git a/modules/nf-core/odgi/unchop/main.nf b/modules/nf-core/odgi/unchop/main.nf
@@ -2,10 +2,10 @@ process ODGI_UNCHOP {
     tag "$meta.id"
     label 'process_medium'
 
-    conda "bioconda::odgi=0.8.2"
+    conda "bioconda::odgi=0.8.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/odgi:0.8.2--py310hc8f18ef_0':
-        'biocontainers/odgi:0.8.2--py310hc8f18ef_0' }"
+        'https://depot.galaxyproject.org/singularity/odgi:0.8.3--py310h6cc9453_0':
+        'biocontainers/odgi:0.8.3--py310h6cc9453_0' }"
 
     input:
     tuple val(meta), path(graph)

diff --git a/modules/nf-core/odgi/view/main.nf b/modules/nf-core/odgi/view/main.nf
@@ -2,10 +2,10 @@ process ODGI_VIEW {
     tag "$meta.id"
     label 'process_single'
 
-    conda "bioconda::odgi=0.8.2"
+    conda "bioconda::odgi=0.8.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/odgi:0.8.2--py310hc8f18ef_0':
-        'biocontainers/odgi:0.8.2--py310hc8f18ef_0' }"
+        'https://depot.galaxyproject.org/singularity/odgi:0.8.3--py310h6cc9453_0':
+        'biocontainers/odgi:0.8.3--py310h6cc9453_0' }"
 
     input:
     tuple val(meta), path(graph)

diff --git a/modules/nf-core/odgi/viz/main.nf b/modules/nf-core/odgi/viz/main.nf
@@ -2,10 +2,10 @@ process ODGI_VIZ {
     tag "$meta.id"
     label 'process_single'
 
-    conda "bioconda::odgi=0.8.2"
+    conda "bioconda::odgi=0.8.3"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/odgi:0.8.2--py39h2add14b_0':
-        'biocontainers/odgi:0.8.2--py310hc8f18ef_0' }"
+        'https://depot.galaxyproject.org/singularity/odgi:0.8.3--py310h6cc9453_0':
+        'biocontainers/odgi:0.8.3--py310h6cc9453_0' }"
 
     input:
     tuple val(meta), path(graph)