import os.pathfromcwltool.main import setup_loadingContext, load_job_order, init_job_orderfromcwltool.context import RuntimeContextfromcwltool.argparser import arg_parserfromcwltool.load_tool import resolve_tool
Hi@mr-c! I noticed that the following package(s) don't yet have maintainers: py-cachecontrol py-cwl-utils py-cwltool py-mistune py-schema-salad Are you interested in adopting any of these package(s)? If so, simply add the following to the package class: maintainers("mr-c") If n...
common-workflow-language / cwltool Public Notifications Fork 231 Star 339 New issue Jump to bottom --no-warnings includes schema-salad; --validate should complain to stdout #2084 Merged mr-c merged 1 commit into main from no_warnings_ss Dec 10, 2024 +107 −31 Conversation 1 ...
Portable workflow and tool descriptions with the CWLPeter AmstutzNeboja TijaniStian Soiland-ReyesJohn KernLuka StojanovicTim PierceJohn ChiltonMaxim MikheevSamuel LampaHervé MénagerBioinformatics Open Source Conference
Can't pickle cwltool:ProcessGenerator DataBiosphere/toil#4404 Open mr-c force-pushed the pickle_processgenerator branch from 8b7c8da to 7afbe88 Compare April 8, 2025 12:12 mr-c added 2 commits April 8, 2025 14:32 lint: remove unneeded global statements cd8adfe ProcessGenerator: allow...
A conda-smithy repository for cwltool. Contribute to conda-forge/cwltool-feedstock development by creating an account on GitHub.
Updates the requirements on flake8-bugbear to permit the latest version. Release notes Sourced from flake8-bugbear's releases. 24.12.12 B012 and B025 now also handle try/except* (#500) Skip B028...
Common Workflow Language reference implementation. Contribute to common-workflow-language/cwltool development by creating an account on GitHub.
Common Workflow Language tool/workflow definitions, wrappers, and APIInstallationblue-cwl can be pip installed with the following command:$ pip install blue-cwlTestspip install tox toxAcknowledgementsThe development of this software was supported by funding to the Blue Brain Project, a research center...
galaxy2cwl INPUT_GALAXY_WORKFLOW(.ga/.yaml) > OUTPUT_WORKFLOW.cwl The tool works with inputs in both format1 (json format .ga, currently the standard for Galaxy workflow definitions) and format2. As described in the implementation (https://github.com/galaxyproject/gxformat2), gxformat2 is...