diff --git a/modules/nf-core/semibin/singleeasybin/environment.yml b/modules/nf-core/semibin/singleeasybin/environment.yml index 20654bc963ba..ae3654fbbd6d 100644 --- a/modules/nf-core/semibin/singleeasybin/environment.yml +++ b/modules/nf-core/semibin/singleeasybin/environment.yml @@ -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 diff --git a/modules/nf-core/semibin/singleeasybin/main.nf b/modules/nf-core/semibin/singleeasybin/main.nf index 76b1a6ac2252..913ddefa8b68 100644 --- a/modules/nf-core/semibin/singleeasybin/main.nf +++ b/modules/nf-core/semibin/singleeasybin/main.nf @@ -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) diff --git a/modules/nf-core/semibin/singleeasybin/tests/main.nf.test.snap b/modules/nf-core/semibin/singleeasybin/tests/main.nf.test.snap index 61ed620ee72a..affadd0ef7bc 100644 --- a/modules/nf-core/semibin/singleeasybin/tests/main.nf.test.snap +++ b/modules/nf-core/semibin/singleeasybin/tests/main.nf.test.snap @@ -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" ] ] ], @@ -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" ] ] ], @@ -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": [