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Merge pull request #9 from nf-core/dev
Update nf-core/isoseq to version 1.1.2
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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" | ||
| }, | ||
|
|
||
| // 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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| Original file line number | Diff line number | Diff line change |
|---|---|---|
|
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@@ -7,3 +7,4 @@ testing/ | |
| testing* | ||
| *.pyc | ||
| .idea/ | ||
| .vscode | ||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,67 @@ | ||
| { | ||
| "type": "message", | ||
| "attachments": [ | ||
| { | ||
| "contentType": "application/vnd.microsoft.card.adaptive", | ||
| "contentUrl": null, | ||
| "content": { | ||
| "\$schema": "http://adaptivecards.io/schemas/adaptive-card.json", | ||
| "msteams": { | ||
| "width": "Full" | ||
| }, | ||
| "type": "AdaptiveCard", | ||
| "version": "1.2", | ||
| "body": [ | ||
| { | ||
| "type": "TextBlock", | ||
| "size": "Large", | ||
| "weight": "Bolder", | ||
| "color": "<% if (success) { %>Good<% } else { %>Attention<%} %>", | ||
| "text": "nf-core/isoseq v${version} - ${runName}", | ||
| "wrap": true | ||
| }, | ||
| { | ||
| "type": "TextBlock", | ||
| "spacing": "None", | ||
| "text": "Completed at ${dateComplete} (duration: ${duration})", | ||
| "isSubtle": true, | ||
| "wrap": true | ||
| }, | ||
| { | ||
| "type": "TextBlock", | ||
| "text": "<% if (success) { %>Pipeline completed successfully!<% } else { %>Pipeline completed with errors. The full error message was: ${errorReport}.<% } %>", | ||
| "wrap": true | ||
| }, | ||
| { | ||
| "type": "TextBlock", | ||
| "text": "The command used to launch the workflow was as follows:", | ||
| "wrap": true | ||
| }, | ||
| { | ||
| "type": "TextBlock", | ||
| "text": "${commandLine}", | ||
| "isSubtle": true, | ||
| "wrap": true | ||
| } | ||
| ], | ||
| "actions": [ | ||
| { | ||
| "type": "Action.ShowCard", | ||
| "title": "Pipeline Configuration", | ||
| "card": { | ||
| "type": "AdaptiveCard", | ||
| "\$schema": "http://adaptivecards.io/schemas/adaptive-card.json", | ||
| "body": [ | ||
| { | ||
| "type": "FactSet", | ||
| "facts": [<% out << summary.collect{ k,v -> "{\"title\": \"$k\", \"value\" : \"$v\"}"}.join(",\n") %> | ||
| ] | ||
| } | ||
| ] | ||
| } | ||
| } | ||
| ] | ||
| } | ||
| } | ||
| ] | ||
| } |
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