Bump star build for multithreading fix (#7286)

* Bump star build for multithreading fix * Update starsolo env as well * Try docker ownership fixes * Revert "Try docker ownership fixes" This reverts commit f04a25f.
nf-core · Jan 10, 2025 · 3c259f0 · 3c259f0
1 parent 045f0fb
commit 3c259f0
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Showing 4 changed files with 10 additions and 6 deletions.
diff --git a/modules/nf-core/star/align/main.nf b/modules/nf-core/star/align/main.nf
@@ -4,8 +4,8 @@ process STAR_ALIGN {
 
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/10/101ea47973178f85ff66a34de6a7462aaf99d947d3924c27ce8a2d5a63009065/data' :
-        'community.wave.seqera.io/library/htslib_samtools_star_gawk:311d422a50e6d829' }"
+        'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/26/268b4c9c6cbf8fa6606c9b7fd4fafce18bf2c931d1a809a0ce51b105ec06c89d/data' :
+        'community.wave.seqera.io/library/htslib_samtools_star_gawk:ae438e9a604351a4' }"
 
     input:
     tuple val(meta), path(reads, stageAs: "input*/*")

diff --git a/modules/nf-core/star/genomegenerate/main.nf b/modules/nf-core/star/genomegenerate/main.nf
@@ -4,8 +4,8 @@ process STAR_GENOMEGENERATE {
 
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/10/101ea47973178f85ff66a34de6a7462aaf99d947d3924c27ce8a2d5a63009065/data' :
-        'community.wave.seqera.io/library/htslib_samtools_star_gawk:311d422a50e6d829' }"
+        'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/26/268b4c9c6cbf8fa6606c9b7fd4fafce18bf2c931d1a809a0ce51b105ec06c89d/data' :
+        'community.wave.seqera.io/library/htslib_samtools_star_gawk:ae438e9a604351a4' }"
 
     input:
     tuple val(meta), path(fasta)

diff --git a/modules/nf-core/star/starsolo/environment.yml b/modules/nf-core/star/starsolo/environment.yml
@@ -1,5 +1,9 @@
 channels:
   - conda-forge
   - bioconda
+
 dependencies:
+  - bioconda::htslib=1.21
+  - bioconda::samtools=1.21
   - bioconda::star=2.7.11b
+  - conda-forge::gawk=5.1.0
diff --git a/modules/nf-core/star/starsolo/main.nf b/modules/nf-core/star/starsolo/main.nf
@@ -4,8 +4,8 @@ process STARSOLO {
 
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/star:2.7.11b--h43eeafb_2':
-        'biocontainers/star:2.7.11b--h43eeafb_2' }"
+        'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/26/268b4c9c6cbf8fa6606c9b7fd4fafce18bf2c931d1a809a0ce51b105ec06c89d/data' :
+        'community.wave.seqera.io/library/htslib_samtools_star_gawk:ae438e9a604351a4' }"
 
     input:
     tuple val(meta), val(solotype), path(reads)