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52c541b080
* rebuild cooler cload. * update test file path of cload. * add pytest for cload * update to version.yml * update the test data path * Update tests/modules/cooler/cload/main.nf Co-authored-by: Sébastien Guizard <sguizard@ed.ac.uk> * Update modules/cooler/cload/main.nf Co-authored-by: Sébastien Guizard <sguizard@ed.ac.uk> * Update tests/config/test_data.config Co-authored-by: Sébastien Guizard <sguizard@ed.ac.uk> * Update main.nf Remove a lonely curly bracket. * Update test.yml Updated with new workflows. * update the test files * merge the conflicts. * update the test.yml * update for change of cooler/dump Co-authored-by: Gregor Sturm <mail@gregor-sturm.de> Co-authored-by: Sébastien Guizard <sguizard@ed.ac.uk> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
52 lines
1.3 KiB
YAML
52 lines
1.3 KiB
YAML
name: cooler_cload
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description: Create a cooler from genomic pairs and bins
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keywords:
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- cool
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tools:
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- cooler:
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description: Sparse binary format for genomic interaction matrices
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homepage: https://cooler.readthedocs.io/en/latest/index.html
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documentation: https://cooler.readthedocs.io/en/latest/index.html
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tool_dev_url: https://github.com/open2c/cooler
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doi: "10.1093/bioinformatics/btz540"
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licence: ['BSD-3-clause']
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input:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- pairs:
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type: file
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description: Path to contacts (i.e. read pairs) file.
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- index:
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type: file
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description: Path to index file of the contacts.
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- cool_bin:
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type: value
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description: Bins size in bp
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- chromsizes:
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type: file
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description: Path to a chromsizes file.
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output:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- version:
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type: file
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description: File containing software version
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pattern: "versions.yml"
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- cool:
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type: file
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description: Output COOL file path
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pattern: "*.cool"
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- cool_bin:
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type: value
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description: Bins size in bp
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authors:
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- "@jianhong"
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