diff --git a/.devcontainer/devcontainer.json b/.devcontainer/devcontainer.json index c185419..ed16369 100644 --- a/.devcontainer/devcontainer.json +++ b/.devcontainer/devcontainer.json @@ -7,7 +7,7 @@ "nextflow.nextflow", "esbenp.prettier-vscode", "redhat.vscode-yaml", - "GitHub.vscode-pull-request-github", + "GitHub.vscode-pull-request-github", "github.vscode-github-actions" ] } diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml index 3ac4a9a..193e427 100644 --- a/.github/workflows/test.yml +++ b/.github/workflows/test.yml @@ -33,7 +33,7 @@ jobs: - name: Prettier Action uses: creyD/prettier_action@v4.3 with: - prettier_options: '--write *' + prettier_options: "--write '*'" - name: Run Prettier --check run: prettier --check . diff --git a/nextflow_schema.json b/nextflow_schema.json index 8a90bb9..d50c112 100644 --- a/nextflow_schema.json +++ b/nextflow_schema.json @@ -1,38 +1,37 @@ { - "$schema": "http://json-schema.org/draft-07/schema", - "$id": "https://raw.githubusercontent.com/./master/nextflow_schema.json", - "title": ". pipeline parameters", - "description": "", - "type": "object", - "definitions": { - "parameters": { - "title": "Parameters", - "type": "object", - "description": "", - "default": "", - "properties": { - "skip": { - "type": "string", - "description": "Tests to skip as comma delimited values.", - "help_text": "Tests to skip as comma delimited values. E.g. --skip TEST_SUCCESS,TEST_INPUT. Case insensitive." - }, - "remoteFile": { - "type": "string", - "description": "Path to remote file to download and use.", - "help_text": "Path to a remote file to use within the pipeline. This mimics a remote set of files such as reference data that may need to be retrieved prior to analysis. By default this is not specified and the test is not ran, add a remote file using standard Nextflow filenaming to pull a file from your storage (e.g. an S3 bucket or shared storage).", - "format": "path" - }, - "outdir": { - "type": "string", - "description": "Path to use for publishing output files.", - "help_text": "Path to a remote folder to publish files to. If not specified, this is a subfolder within the working directory but if specified it will publish files to the path specified in this parameter." + "$schema": "http://json-schema.org/draft-07/schema", + "$id": "https://raw.githubusercontent.com/./master/nextflow_schema.json", + "title": ". pipeline parameters", + "description": "", + "type": "object", + "definitions": { + "parameters": { + "title": "Parameters", + "type": "object", + "description": "", + "default": "", + "properties": { + "skip": { "type": "string", + "description": "Tests to skip as comma delimited values.", + "help_text": "Tests to skip as comma delimited values. E.g. --skip TEST_SUCCESS,TEST_INPUT. Case insensitive." + }, + "remoteFile": { + "type": "string", + "description": "Path to remote file to download and use.", + "help_text": "Path to a remote file to use within the pipeline. This mimics a remote set of files such as reference data that may need to be retrieved prior to analysis. By default this is not specified and the test is not ran, add a remote file using standard Nextflow filenaming to pull a file from your storage (e.g. an S3 bucket or shared storage).", + "format": "path" + }, + "outdir": { + "type": "string", + "description": "Path to use for publishing output files.", + "help_text": "Path to a remote folder to publish files to. If not specified, this is a subfolder within the working directory but if specified it will publish files to the path specified in this parameter." + } + } } - } - } - }, - "allOf": [ - { - "$ref": "#/definitions/parameters" - } - ] + }, + "allOf": [ + { + "$ref": "#/definitions/parameters" + } + ] }