propagate container/env change

nf-core · Dec 19, 2024 · 27b3f8b · 27b3f8b
1 parent 0ea316e
commit 27b3f8b
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Showing 5 changed files with 7 additions and 10 deletions.
diff --git a/modules/local/fusioninspector/environment.yml b/modules/local/fusioninspector/environment.yml
@@ -5,7 +5,4 @@ dependencies:
   - bioconda::dfam=3.7
   - bioconda::hmmer=3.4
   - bioconda::minimap2=2.28
-  - bioconda::samtools=1.6
   - bioconda::star-fusion=1.14.0
-  - bioconda::star=2.7.11b
-  - bioconda::trinity=2.8.5
diff --git a/modules/local/fusioninspector/main.nf b/modules/local/fusioninspector/main.nf
@@ -4,8 +4,8 @@ process FUSIONINSPECTOR {
 
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/star-fusion:1.14.0--hdfd78af_0' :
-        'community.wave.seqera.io/library/dfam_hmmer_minimap2_samtools_pruned:bd39df228dad7086'}"
+        'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/be/bed86145102fdf7e381e1a506a4723676f98b4bbe1db5085d02213cef18525c9/data' :
+        'community.wave.seqera.io/library/dfam_hmmer_minimap2_star-fusion:aa3a8e3951498552'}"
 
     input:
     tuple val(meta), path(reads), path(fusion_list)

diff --git a/modules/local/starfusion/build/main.nf b/modules/local/starfusion/build/main.nf
@@ -4,7 +4,7 @@ process STARFUSION_BUILD {
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/be/bed86145102fdf7e381e1a506a4723676f98b4bbe1db5085d02213cef18525c9/data' :
-        'community.wave.seqera.io/library/dfam_hmmer_star-fusion:e8fe96707386872f'}"
+        'community.wave.seqera.io/library/dfam_hmmer_minimap2_star-fusion:aa3a8e3951498552'}"
 
     input:
     tuple val(meta), path(fasta)

diff --git a/modules/local/starfusion/detect/main.nf b/modules/local/starfusion/detect/main.nf
@@ -4,8 +4,8 @@ process STARFUSION {
 
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/f7/f7977acd75883433483258a1cc21d069a64947af431b26c3fc13c6be62666dfa/data' :
-        'community.wave.seqera.io/library/dfam_hmmer_star-fusion:e8fe96707386872f'}"
+        'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/be/bed86145102fdf7e381e1a506a4723676f98b4bbe1db5085d02213cef18525c9/data' :
+        'community.wave.seqera.io/library/dfam_hmmer_minimap2_star-fusion:aa3a8e3951498552'}"
 
     input:
     tuple val(meta), path(reads), path(junction)

diff --git a/modules/local/starfusion/download/main.nf b/modules/local/starfusion/download/main.nf
@@ -3,8 +3,8 @@ process STARFUSION_DOWNLOAD {
 
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/f7/f7977acd75883433483258a1cc21d069a64947af431b26c3fc13c6be62666dfa/data' :
-        'community.wave.seqera.io/library/dfam_hmmer_star-fusion:e8fe96707386872f'}"
+        'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/be/bed86145102fdf7e381e1a506a4723676f98b4bbe1db5085d02213cef18525c9/data' :
+        'community.wave.seqera.io/library/dfam_hmmer_minimap2_star-fusion:aa3a8e3951498552'}"
 
     output:
     path "ctat_genome_lib_build_dir/*"            , emit: reference