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Update semibin/singleeasybin environment #9495

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Merged
dialvarezs merged 1 commit into from
Dec 2, 2025
Merged

Update semibin/singleeasybin environment #9495

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3 changes: 3 additions & 0 deletions modules/nf-core/semibin/singleeasybin/environment.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -5,3 +5,6 @@ channels:
- bioconda
dependencies:
- bioconda::semibin=2.2.0
# This pins solves an issue of SemiBin getting stuck.
# See https://github.com/BigDataBiology/SemiBin/issues/208
- conda-forge::igraph=0.10.17
4 changes: 2 additions & 2 deletions modules/nf-core/semibin/singleeasybin/main.nf
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Expand Up @@ -4,8 +4,8 @@ process SEMIBIN_SINGLEEASYBIN {

conda "${moduleDir}/environment.yml"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/semibin:2.2.0--pyhdfd78af_0':
'biocontainers/semibin:2.2.0--pyhdfd78af_0' }"
'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/0d/0d205dadfeb5d37829b4fbde39319b07e2971884670ff7e84df4cc4d809ff8a5/data':
'community.wave.seqera.io/library/semibin_igraph:fcb667d6c87bf3fd' }"

input:
tuple val(meta), path(fasta), path(bam)
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14 changes: 7 additions & 7 deletions modules/nf-core/semibin/singleeasybin/tests/main.nf.test.snap
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Expand Up @@ -8,9 +8,9 @@
"id": "test"
},
[
"data.csv:md5,afdbb1c4a8c64aa1411c14521615a38a",
"data.csv:md5,eff24dad52ab76b8a030335c938a64f6",
"data_split.csv:md5,6f05c805f4e696315d104de6cc0c8f23",
"test1_contigs.sorted.bam_0_data_cov.csv:md5,85e1f6ca7e56c717700fbf5773dcf3c4"
"test1_contigs.sorted.bam_0_data_cov.csv:md5,fd0978a81966ee7c817dfeff79d082ae"
]
]
],
Expand Down Expand Up @@ -74,9 +74,9 @@
"id": "test"
},
[
"data.csv:md5,afdbb1c4a8c64aa1411c14521615a38a",
"data.csv:md5,eff24dad52ab76b8a030335c938a64f6",
"data_split.csv:md5,6f05c805f4e696315d104de6cc0c8f23",
"test1_contigs.sorted.bam_0_data_cov.csv:md5,85e1f6ca7e56c717700fbf5773dcf3c4"
"test1_contigs.sorted.bam_0_data_cov.csv:md5,fd0978a81966ee7c817dfeff79d082ae"
]
]
],
Expand Down Expand Up @@ -142,10 +142,10 @@
}
],
"meta": {
"nf-test": "0.9.2",
"nextflow": "24.10.6"
"nf-test": "0.9.3",
"nextflow": "25.10.2"
},
"timestamp": "2025-05-09T08:17:02.965125107"
"timestamp": "2025-12-02T13:19:13.461592294"
},
"bacteroides_fragilis - stub": {
"content": [
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