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Merged
mribeirodantas merged 2 commits into from
Oct 20, 2026
Merged

picard: Add Seqera container metadata and conda lock files #13410

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602f7c2
picard: Add Seqera container metadata and conda lock files
mribeirodantas Oct 19, 2026
623223b
Update nf-test snapshots
mribeirodantas Oct 19, 2026
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1,298 changes: 1,298 additions & 0 deletions ...s/nf-core/picard/addorreplacereadgroups/.conda-lock/linux_amd64-bd-be20f299a1924f0d_1.txt
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1,224 changes: 1,224 additions & 0 deletions ...s/nf-core/picard/addorreplacereadgroups/.conda-lock/linux_arm64-bd-5516268008db5ab4_1.txt
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2 changes: 1 addition & 1 deletion modules/nf-core/picard/addorreplacereadgroups/main.nf
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Expand Up @@ -5,7 +5,7 @@ process PICARD_ADDORREPLACEREADGROUPS {
conda "${moduleDir}/environment.yml"
container "${workflow.containerEngine in ['singularity', 'apptainer'] && !task.ext.singularity_pull_docker_container
? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/b4/b474c6f12c0502377b95062b75ef4b7778864b1353c7fc1d5a3b1f3b3017fd2e/data'
: 'community.wave.seqera.io/library/picard:3.5.0--842d4c70c98af9b4'}"
: 'community.wave.seqera.io/library/picard:3.5.0--be20f299a1924f0d'}"

input:
tuple val(meta), path(reads)
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24 changes: 24 additions & 0 deletions modules/nf-core/picard/addorreplacereadgroups/meta.yml
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Expand Up @@ -109,3 +109,27 @@ maintainers:
- "@hseabolt"
- "@cmatKhan"
- "@muffato"
containers:
docker:
linux/amd64:
name: community.wave.seqera.io/library/picard:3.5.0--be20f299a1924f0d
build_id: bd-be20f299a1924f0d_1
scan_id: sc-ad63bee994dd89b0_1
linux/arm64:
name: community.wave.seqera.io/library/picard:3.5.0--5516268008db5ab4
build_id: bd-5516268008db5ab4_1
scan_id: sc-c16455a3c81bb32a_1
singularity:
linux/amd64:
name: oras://community.wave.seqera.io/library/picard:3.5.0--89375ac386b71342
build_id: bd-89375ac386b71342_1
https: https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/b4/b474c6f12c0502377b95062b75ef4b7778864b1353c7fc1d5a3b1f3b3017fd2e/data
linux/arm64:
name: oras://community.wave.seqera.io/library/picard:3.5.0--51fe15653ca25a7c
build_id: bd-51fe15653ca25a7c_1
https: https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/35/35ed881e77f6b66f1b9204394c8909fd66da367891434a81f536704a13fad3c3/data
conda:
linux/amd64:
lock_file: modules/nf-core/picard/addorreplacereadgroups/.conda-lock/linux_amd64-bd-be20f299a1924f0d_1.txt
linux/arm64:
lock_file: modules/nf-core/picard/addorreplacereadgroups/.conda-lock/linux_arm64-bd-5516268008db5ab4_1.txt
1,298 changes: 1,298 additions & 0 deletions modules/nf-core/picard/bedtointervallist/.conda-lock/linux_amd64-bd-be20f299a1924f0d_1.txt
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1,224 changes: 1,224 additions & 0 deletions modules/nf-core/picard/bedtointervallist/.conda-lock/linux_arm64-bd-5516268008db5ab4_1.txt
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2 changes: 1 addition & 1 deletion modules/nf-core/picard/bedtointervallist/main.nf
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Expand Up @@ -5,7 +5,7 @@ process PICARD_BEDTOINTERVALLIST {
conda "${moduleDir}/environment.yml"
container "${workflow.containerEngine in ['singularity', 'apptainer'] && !task.ext.singularity_pull_docker_container
? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/b4/b474c6f12c0502377b95062b75ef4b7778864b1353c7fc1d5a3b1f3b3017fd2e/data'
: 'community.wave.seqera.io/library/picard:3.5.0--842d4c70c98af9b4'}"
: 'community.wave.seqera.io/library/picard:3.5.0--be20f299a1924f0d'}"

input:
tuple val(meta), path(bed)
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24 changes: 24 additions & 0 deletions modules/nf-core/picard/bedtointervallist/meta.yml
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Expand Up @@ -76,3 +76,27 @@ authors:
maintainers:
- "@kevinmenden"
- "@matthdsm"
containers:
docker:
linux/arm64:
name: community.wave.seqera.io/library/picard:3.5.0--5516268008db5ab4
build_id: bd-5516268008db5ab4_1
scan_id: sc-c16455a3c81bb32a_1
linux/amd64:
name: community.wave.seqera.io/library/picard:3.5.0--be20f299a1924f0d
build_id: bd-be20f299a1924f0d_1
scan_id: sc-ad63bee994dd89b0_1
singularity:
linux/arm64:
name: oras://community.wave.seqera.io/library/picard:3.5.0--51fe15653ca25a7c
build_id: bd-51fe15653ca25a7c_1
https: https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/35/35ed881e77f6b66f1b9204394c8909fd66da367891434a81f536704a13fad3c3/data
linux/amd64:
name: oras://community.wave.seqera.io/library/picard:3.5.0--89375ac386b71342
build_id: bd-89375ac386b71342_1
https: https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/b4/b474c6f12c0502377b95062b75ef4b7778864b1353c7fc1d5a3b1f3b3017fd2e/data
conda:
linux/amd64:
lock_file: modules/nf-core/picard/bedtointervallist/.conda-lock/linux_amd64-bd-be20f299a1924f0d_1.txt
linux/arm64:
lock_file: modules/nf-core/picard/bedtointervallist/.conda-lock/linux_arm64-bd-5516268008db5ab4_1.txt
1,298 changes: 1,298 additions & 0 deletions modules/nf-core/picard/cleansam/.conda-lock/linux_amd64-bd-be20f299a1924f0d_1.txt
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1,224 changes: 1,224 additions & 0 deletions modules/nf-core/picard/cleansam/.conda-lock/linux_arm64-bd-5516268008db5ab4_1.txt
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2 changes: 1 addition & 1 deletion modules/nf-core/picard/cleansam/main.nf
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Expand Up @@ -5,7 +5,7 @@ process PICARD_CLEANSAM {
conda "${moduleDir}/environment.yml"
container "${workflow.containerEngine in ['singularity', 'apptainer'] && !task.ext.singularity_pull_docker_container
? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/b4/b474c6f12c0502377b95062b75ef4b7778864b1353c7fc1d5a3b1f3b3017fd2e/data'
: 'community.wave.seqera.io/library/picard:3.5.0--842d4c70c98af9b4'}"
: 'community.wave.seqera.io/library/picard:3.5.0--be20f299a1924f0d'}"

input:
tuple val(meta), path(bam)
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27 changes: 25 additions & 2 deletions modules/nf-core/picard/cleansam/meta.yml
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@@ -1,6 +1,5 @@
name: picard_cleansam
description: Cleans the provided BAM, soft-clipping beyond-end-of-reference alignments
and setting MAPQ to 0 for unmapped reads
description: Cleans the provided BAM, soft-clipping beyond-end-of-reference alignments and setting MAPQ to 0 for unmapped reads
keywords:
- clean
- bam
Expand Down Expand Up @@ -69,3 +68,27 @@ maintainers:
- "@sateeshperi"
- "@mjcipriano"
- "@hseabolt"
containers:
docker:
linux/amd64:
name: community.wave.seqera.io/library/picard:3.5.0--be20f299a1924f0d
build_id: bd-be20f299a1924f0d_1
scan_id: sc-ad63bee994dd89b0_1
linux/arm64:
name: community.wave.seqera.io/library/picard:3.5.0--5516268008db5ab4
build_id: bd-5516268008db5ab4_1
scan_id: sc-c16455a3c81bb32a_1
singularity:
linux/amd64:
name: oras://community.wave.seqera.io/library/picard:3.5.0--89375ac386b71342
build_id: bd-89375ac386b71342_1
https: https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/b4/b474c6f12c0502377b95062b75ef4b7778864b1353c7fc1d5a3b1f3b3017fd2e/data
linux/arm64:
name: oras://community.wave.seqera.io/library/picard:3.5.0--51fe15653ca25a7c
build_id: bd-51fe15653ca25a7c_1
https: https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/35/35ed881e77f6b66f1b9204394c8909fd66da367891434a81f536704a13fad3c3/data
conda:
linux/amd64:
lock_file: modules/nf-core/picard/cleansam/.conda-lock/linux_amd64-bd-be20f299a1924f0d_1.txt
linux/arm64:
lock_file: modules/nf-core/picard/cleansam/.conda-lock/linux_arm64-bd-5516268008db5ab4_1.txt
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