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Merge pull request #135 from nf-core/dev
Dev -> Master for v1.9 release
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,27 @@ | ||
| { | ||
| "name": "nfcore", | ||
| "image": "nfcore/gitpod:latest", | ||
| "remoteUser": "gitpod", | ||
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| // Configure tool-specific properties. | ||
| "customizations": { | ||
| // Configure properties specific to VS Code. | ||
| "vscode": { | ||
| // Set *default* container specific settings.json values on container create. | ||
| "settings": { | ||
| "python.defaultInterpreterPath": "/opt/conda/bin/python", | ||
| "python.linting.enabled": true, | ||
| "python.linting.pylintEnabled": true, | ||
| "python.formatting.autopep8Path": "/opt/conda/bin/autopep8", | ||
| "python.formatting.yapfPath": "/opt/conda/bin/yapf", | ||
| "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" | ||
| }, | ||
|
|
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| // 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"] | ||
| } | ||
| } | ||
| } |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,3 +1,4 @@ | ||
| *.config linguist-language=nextflow | ||
| *.nf.test linguist-language=nextflow | ||
| modules/nf-core/** linguist-generated | ||
| subworkflows/nf-core/** linguist-generated |
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| { | ||
| "attachments": [ | ||
| { | ||
| "fallback": "Plain-text summary of the attachment.", | ||
| "color": "<% if (success) { %>good<% } else { %>danger<%} %>", | ||
| "author_name": "sanger-tol/readmapping v${version} - ${runName}", | ||
| "author_icon": "https://www.nextflow.io/docs/latest/_static/favicon.ico", | ||
| "text": "<% if (success) { %>Pipeline completed successfully!<% } else { %>Pipeline completed with errors<% } %>", | ||
| "fields": [ | ||
| { | ||
| "title": "Command used to launch the workflow", | ||
| "value": "```${commandLine}```", | ||
| "short": false | ||
| } | ||
| <% | ||
| if (!success) { %> | ||
| , | ||
| { | ||
| "title": "Full error message", | ||
| "value": "```${errorReport}```", | ||
| "short": false | ||
| }, | ||
| { | ||
| "title": "Pipeline configuration", | ||
| "value": "<% out << summary.collect{ k,v -> k == "hook_url" ? "_${k}_: (_hidden_)" : ( ( v.class.toString().contains('Path') || ( v.class.toString().contains('String') && v.contains('/') ) ) ? "_${k}_: `${v}`" : (v.class.toString().contains('DateTime') ? ("_${k}_: " + v.format(java.time.format.DateTimeFormatter.ofLocalizedDateTime(java.time.format.FormatStyle.MEDIUM))) : "_${k}_: ${v}") ) }.join(",\n") %>", | ||
| "short": false | ||
| } | ||
| <% } | ||
| %> | ||
| ], | ||
| "footer": "Completed at <% out << dateComplete.format(java.time.format.DateTimeFormatter.ofLocalizedDateTime(java.time.format.FormatStyle.MEDIUM)) %> (duration: ${duration})" | ||
| } | ||
| ] | ||
| } |
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