chore: update pixelator source to bioconda/biocontainers

nf-core · Sep 18, 2023 · 9a8554d · 9a8554d
1 parent a088fde
commit 9a8554d
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Showing 10 changed files with 28 additions and 30 deletions.
diff --git a/modules/local/pixelator/collect_metadata.nf b/modules/local/pixelator/collect_metadata.nf
@@ -8,9 +8,8 @@ process PIXELATOR_COLLECT_METADATA {
     label 'process_single'
     cache false
 
-    // TODO: Update once pixelator is public in bioconda
-    conda "local::pixelator=0.13.0"
-    container 'ghcr.io/pixelgentechnologies/pixelator:0.12.0'
+    conda "bioconda::pixelator=0.13.1"
+    container "biocontainers/pixelator:0.13.1"
 
     input:
 

diff --git a/modules/local/pixelator/list_options.nf b/modules/local/pixelator/list_options.nf
@@ -1,9 +1,9 @@
 process PIXELATOR_LIST_OPTIONS {
     label 'process_single'
 
-    // TODO: Update once pixelator is public in bioconda
-    conda "local::pixelator=0.13.0"
-    container "ghcr.io/pixelgentechnologies/pixelator:0.13.0"
+
+    conda "bioconda::pixelator=0.13.1"
+    container "biocontainers/pixelator:0.13.1"
 
     output:
     path "design_options.txt"     , emit: designs

diff --git a/modules/local/pixelator/single-cell/amplicon/main.nf b/modules/local/pixelator/single-cell/amplicon/main.nf
@@ -2,9 +2,9 @@ process PIXELATOR_AMPLICON {
     tag "$meta.id"
     label 'process_low'
 
-    // TODO: Update once pixelator is public in bioconda
-    conda "local::pixelator=0.13.0"
-    container "ghcr.io/pixelgentechnologies/pixelator:0.13.0"
+
+    conda "bioconda::pixelator=0.13.1"
+    container "biocontainers/pixelator:0.13.1"
 
     input:
     tuple val(meta), path(reads)

diff --git a/modules/local/pixelator/single-cell/analysis/main.nf b/modules/local/pixelator/single-cell/analysis/main.nf
@@ -2,9 +2,9 @@ process PIXELATOR_ANALYSIS {
     tag "$meta.id"
     label 'process_medium'
 
-    // TODO: Update once pixelator is public in bioconda
-    conda "local::pixelator=0.13.0"
-    container "ghcr.io/pixelgentechnologies/pixelator:0.13.0"
+
+    conda "bioconda::pixelator=0.13.1"
+    container "biocontainers/pixelator:0.13.1"
 
     input:
     tuple val(meta), path(data)

diff --git a/modules/local/pixelator/single-cell/annotate/main.nf b/modules/local/pixelator/single-cell/annotate/main.nf
@@ -2,9 +2,9 @@ process PIXELATOR_ANNOTATE {
     tag "$meta.id"
     label 'process_medium'
 
-    // TODO: Update once pixelator is public in bioconda
-    conda "local::pixelator=0.13.0"
-    container "ghcr.io/pixelgentechnologies/pixelator:0.13.0"
+
+    conda "bioconda::pixelator=0.13.1"
+    container "biocontainers/pixelator:0.13.1"
 
     input:
     tuple val(meta), path(dataset), path(panel_file), val(panel)

diff --git a/modules/local/pixelator/single-cell/collapse/main.nf b/modules/local/pixelator/single-cell/collapse/main.nf
@@ -2,9 +2,8 @@ process PIXELATOR_COLLAPSE {
     tag "$meta.id"
     label 'process_medium'
 
-    // TODO: Update once pixelator is public in bioconda
-    conda "local::pixelator=0.13.0"
-    container "ghcr.io/pixelgentechnologies/pixelator:0.13.0"
+    conda "bioconda::pixelator=0.13.1"
+    container "biocontainers/pixelator:0.13.1"
 
     input:
     tuple val(meta), path(reads), path(panel_file), val(panel)

diff --git a/modules/local/pixelator/single-cell/demux/main.nf b/modules/local/pixelator/single-cell/demux/main.nf
@@ -2,9 +2,9 @@ process PIXELATOR_DEMUX {
     tag "$meta.id"
     label 'process_medium'
 
-    // TODO: Update once pixelator is public in bioconda
-    conda "local::pixelator=0.13.0"
-    container "ghcr.io/pixelgentechnologies/pixelator:0.13.0"
+
+    conda "bioconda::pixelator=0.13.1"
+    container "biocontainers/pixelator:0.13.1"
 
     input:
     tuple val(meta), path(reads), path(panel_file), val(panel)

diff --git a/modules/local/pixelator/single-cell/graph/main.nf b/modules/local/pixelator/single-cell/graph/main.nf
@@ -2,9 +2,9 @@ process PIXELATOR_GRAPH {
     tag "$meta.id"
     label 'process_medium'
 
-    // TODO: Update once pixelator is public in bioconda
-    conda "local::pixelator=0.13.0"
-    container "ghcr.io/pixelgentechnologies/pixelator:0.13.0"
+
+    conda "bioconda::pixelator=0.13.1"
+    container "biocontainers/pixelator:0.13.1"
 
     input:
     tuple val(meta), path(edge_list)

diff --git a/modules/local/pixelator/single-cell/qc/main.nf b/modules/local/pixelator/single-cell/qc/main.nf
@@ -2,9 +2,9 @@ process PIXELATOR_QC {
     tag "$meta.id"
     label 'process_medium'
 
-    // TODO: Update once pixelator is public in bioconda
-    conda "local::pixelator=0.13.0"
-    container "ghcr.io/pixelgentechnologies/pixelator:0.13.0"
+
+    conda "bioconda::pixelator=0.13.1"
+    container "biocontainers/pixelator:0.13.1"
 
     input:
     tuple val(meta), path(reads)

diff --git a/modules/local/pixelator/single-cell/report/main.nf b/modules/local/pixelator/single-cell/report/main.nf
@@ -2,9 +2,9 @@ process PIXELATOR_REPORT {
     tag "$meta.id"
     label 'process_low'
 
-    // TODO: Update once pixelator is public in bioconda
-    conda "local::pixelator=0.13.0"
-    container "ghcr.io/pixelgentechnologies/pixelator:0.13.0"
+
+    conda "bioconda::pixelator=0.13.1"
+    container "biocontainers/pixelator:0.13.1"
 
     input:
     tuple val(meta), path(panel_file), val(panel)