diff --git a/conf/modules/tmt.config b/conf/modules/tmt.config index 9ac03791b..7ce86541a 100644 --- a/conf/modules/tmt.config +++ b/conf/modules/tmt.config @@ -6,7 +6,7 @@ process { // MSSTATSCONVERTER - withName: '.*:TMT:PROTEIN_QUANT:MSSTATS_CONVERTER' { + withName: '.*:TMT:MSSTATS_CONVERTER' { ext.args = "-debug $params.protein_quant_debug" } } diff --git a/modules/local/openms/isobaric_workflow/meta.yml b/modules/local/openms/isobaric_workflow/meta.yml index 45971764b..448eb2ef8 100644 --- a/modules/local/openms/isobaric_workflow/meta.yml +++ b/modules/local/openms/isobaric_workflow/meta.yml @@ -9,6 +9,7 @@ tools: Extracts and normalizes isobaric labeling information from an LC-MS/MS experiment. homepage: https://abibuilder.cs.uni-tuebingen.de/archive/openms/Documentation/release/latest/html/TOPP_IsobaricWorkflow.html documentation: https://abibuilder.cs.uni-tuebingen.de/archive/openms/Documentation/release/latest/html/TOPP_IsobaricWorkflow.html +input: - mzmls: type: file description: Input Spectra in mzML format diff --git a/modules/local/openms/msstats_converter/main.nf b/modules/local/openms/msstats_converter/main.nf index 9d3045524..4bb2a356b 100644 --- a/modules/local/openms/msstats_converter/main.nf +++ b/modules/local/openms/msstats_converter/main.nf @@ -4,8 +4,8 @@ process MSSTATS_CONVERTER { label 'openms' container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'oras://ghcr.io/bigbio/openms-tools-thirdparty-sif:2025.04.14' : - 'ghcr.io/bigbio/openms-tools-thirdparty:2025.04.14' }" + 'oras://ghcr.io/bigbio/openms-tools-thirdparty-sif:2026.06.06' : + 'ghcr.io/bigbio/openms-tools-thirdparty:2026.06.06' }" input: path consensusXML