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nf-core_modules/modules/tabix/bgzip/meta.yml

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chores: replace bcftools/bgzip by tabix/bgzip cf #179
2021-02-16 18:11:36 +00:00
name: tabix_bgzip
add decompress possibilities to bgzip (#1540) * add decompress possibilities to bgzip * spacing
2022-04-20 14:26:56 +00:00
description: Compresses/decompresses files
Adding bcftools_bgzip module
2021-01-30 10:22:25 +00:00
keywords:
Fix formatting in yaml files, add yamllint config (#1279) * fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00
- compress
add decompress possibilities to bgzip (#1540) * add decompress possibilities to bgzip * spacing
2022-04-20 14:26:56 +00:00
- decompress
Fix formatting in yaml files, add yamllint config (#1279) * fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00
- bgzip
- tabix
Adding bcftools_bgzip module
2021-01-30 10:22:25 +00:00
tools:
Fix formatting in yaml files, add yamllint config (#1279) * fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00
- bgzip:
description: |
add decompress possibilities to bgzip (#1540) * add decompress possibilities to bgzip * spacing
2022-04-20 14:26:56 +00:00
Bgzip compresses or decompresses files in a similar manner to, and compatible with, gzip.
Fix formatting in yaml files, add yamllint config (#1279) * fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00
homepage: https://www.htslib.org/doc/tabix.html
documentation: http://www.htslib.org/doc/bgzip.html
doi: 10.1093/bioinformatics/btp352
licence: ["MIT"]
Adding bcftools_bgzip module
2021-01-30 10:22:25 +00:00
input:
Fix formatting in yaml files, add yamllint config (#1279) * fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
add decompress possibilities to bgzip (#1540) * add decompress possibilities to bgzip * spacing
2022-04-20 14:26:56 +00:00
- input:
Fix formatting in yaml files, add yamllint config (#1279) * fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00
type: file
add decompress possibilities to bgzip (#1540) * add decompress possibilities to bgzip * spacing
2022-04-20 14:26:56 +00:00
description: file to compress or to decompress
Adding bcftools_bgzip module
2021-01-30 10:22:25 +00:00
output:
Fix formatting in yaml files, add yamllint config (#1279) * fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
add decompress possibilities to bgzip (#1540) * add decompress possibilities to bgzip * spacing
2022-04-20 14:26:56 +00:00
- output:
Fix formatting in yaml files, add yamllint config (#1279) * fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00
type: file
add decompress possibilities to bgzip (#1540) * add decompress possibilities to bgzip * spacing
2022-04-20 14:26:56 +00:00
description: Output compressed/decompressed file
pattern: "*."
Added an output channel for the gzi index (#2036) * When the `-i` option of bgzip is given, an index is created and needs to be considered an output * It is not necessary to use a subfolder * Updated meta.yml too * Also check that an index name hasn't been requested Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>
2022-09-26 19:47:41 +00:00
- gzi:
type: file
description: Optional gzip index file for compressed inputs
pattern: "*.gzi"
Fix formatting in yaml files, add yamllint config (#1279) * fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
Adding bcftools_bgzip module
2021-01-30 10:22:25 +00:00
authors:
Fix formatting in yaml files, add yamllint config (#1279) * fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00
- "@joseespinosa"
- "@drpatelh"
- "@maxulysse"
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