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Replace modules.config with more modular config files per module/subworkflow/workflow #1199

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merged 8 commits into from
Feb 5, 2024
Merged

Replace modules.config with more modular config files per module/subworkflow/workflow #1199

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8c9a24f
Add empty nextflow.config to all modules/subworkflows/workflows
drpatelh Jan 22, 2024
2af8c47
Rename quantify_pseudo to quantify_pseudo_alignment
drpatelh Jan 22, 2024
79adcbf
First pass updates to split config out of modules.config
drpatelh Jan 22, 2024
0a0b770
Delete empty nextflow.config files
drpatelh Jan 22, 2024
625551f
Refactor configs to add if/else logic back in
drpatelh Feb 4, 2024
9cddbf3
Delete modules.config
drpatelh Feb 4, 2024
f5ae20e
[automated] Fix linting with Prettier
nf-core-bot Feb 4, 2024
c0277fc
Add config for publishing pseudo-alignment files
drpatelh Feb 4, 2024
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8 changes: 4 additions & 4 deletions .devcontainer/devcontainer.json
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Original file line number Diff line number Diff line change
Expand Up @@ -18,11 +18,11 @@
"python.linting.flake8Path": "/opt/conda/bin/flake8",
"python.linting.pycodestylePath": "/opt/conda/bin/pycodestyle",
"python.linting.pydocstylePath": "/opt/conda/bin/pydocstyle",
"python.linting.pylintPath": "/opt/conda/bin/pylint",
"python.linting.pylintPath": "/opt/conda/bin/pylint"
},

// Add the IDs of extensions you want installed when the container is created.
"extensions": ["ms-python.python", "ms-python.vscode-pylance", "nf-core.nf-core-extensionpack"],
},
},
"extensions": ["ms-python.python", "ms-python.vscode-pylance", "nf-core.nf-core-extensionpack"]
}
}
}
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