millironx/nf-core_modules
1
0
Fork 0
mirror of https://github.com/MillironX/nf-core_modules.git synced 2024-11-15 14:13:09 +00:00
Code Issues Releases Packages Activity
nf-core_modules/modules/fastani/meta.yml

46 lines
1.2 KiB
YAML
Raw Normal View History

module fastani (#695) * initiate agrvate module * remove todos [ci skip] * initiate fastani draft [ci skip] * clean stubs [ci skip] * interim commit [ci skip] * accomodate the batch/per-sample processing [ci skip] * use the meta map [ci skip] * run first test [ci skip] * remove extra spaces [ci skip] * change output file name [ci skip] * update the expected output [ci skip] * update the files used for test [ci skip] * fix typo [ci skip] * test passing [ci skip] * update the description * remove extra files * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * use meta map for batch analysis * fix the tests * rely upon tuples * Apply suggestions from code review * Update main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-09-21 19:20:26 +00:00
name: fastani
Improve descriptions for modules with missing Description and keywords Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
2022-07-06 10:03:08 +00:00
description: Alignment-free computation of average nucleotide Identity (ANI)
module fastani (#695) * initiate agrvate module * remove todos [ci skip] * initiate fastani draft [ci skip] * clean stubs [ci skip] * interim commit [ci skip] * accomodate the batch/per-sample processing [ci skip] * use the meta map [ci skip] * run first test [ci skip] * remove extra spaces [ci skip] * change output file name [ci skip] * update the expected output [ci skip] * update the files used for test [ci skip] * fix typo [ci skip] * test passing [ci skip] * update the description * remove extra files * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * use meta map for batch analysis * fix the tests * rely upon tuples * Apply suggestions from code review * Update main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-09-21 19:20:26 +00:00
keywords:
Improve descriptions for modules with missing Description and keywords Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
2022-07-06 10:03:08 +00:00
- genome
- fasta
- ANI
module fastani (#695) * initiate agrvate module * remove todos [ci skip] * initiate fastani draft [ci skip] * clean stubs [ci skip] * interim commit [ci skip] * accomodate the batch/per-sample processing [ci skip] * use the meta map [ci skip] * run first test [ci skip] * remove extra spaces [ci skip] * change output file name [ci skip] * update the expected output [ci skip] * update the files used for test [ci skip] * fix typo [ci skip] * test passing [ci skip] * update the description * remove extra files * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * use meta map for batch analysis * fix the tests * rely upon tuples * Apply suggestions from code review * Update main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-09-21 19:20:26 +00:00
tools:
- fastani:
description: FastANI is developed for fast alignment-free computation of whole-genome Average Nucleotide Identity (ANI).
homepage: https://github.com/ParBLiSS/FastANI
documentation: https://github.com/ParBLiSS/FastANI
tool_dev_url: https://github.com/ParBLiSS/FastANI
doi: 10.1038/s41467-018-07641-9
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
licence: ["Apache-2.0"]
module fastani (#695) * initiate agrvate module * remove todos [ci skip] * initiate fastani draft [ci skip] * clean stubs [ci skip] * interim commit [ci skip] * accomodate the batch/per-sample processing [ci skip] * use the meta map [ci skip] * run first test [ci skip] * remove extra spaces [ci skip] * change output file name [ci skip] * update the expected output [ci skip] * update the files used for test [ci skip] * fix typo [ci skip] * test passing [ci skip] * update the description * remove extra files * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * use meta map for batch analysis * fix the tests * rely upon tuples * Apply suggestions from code review * Update main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-09-21 19:20:26 +00:00
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- query:
type: file
description: Fasta file(s) to be queried
pattern: "*.fasta"
- reference:
type: file
description: Fasta file(s) to be used as reference for the query
pattern: "*.fasta"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- ani:
type: file
description: Results of the query
pattern: "*.ani.txt"
Update versions key in meta.yml for all modules (#787)
2021-10-03 07:20:26 +00:00
- versions:
module fastani (#695) * initiate agrvate module * remove todos [ci skip] * initiate fastani draft [ci skip] * clean stubs [ci skip] * interim commit [ci skip] * accomodate the batch/per-sample processing [ci skip] * use the meta map [ci skip] * run first test [ci skip] * remove extra spaces [ci skip] * change output file name [ci skip] * update the expected output [ci skip] * update the files used for test [ci skip] * fix typo [ci skip] * test passing [ci skip] * update the description * remove extra files * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * use meta map for batch analysis * fix the tests * rely upon tuples * Apply suggestions from code review * Update main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-09-21 19:20:26 +00:00
type: file
Update versions key in meta.yml for all modules (#787)
2021-10-03 07:20:26 +00:00
description: File containing software versions
Bulk update modules to use versions.yml (#739) * New functions.nf * Convert code to create versions.yml * Update meta.yml * update output channel * Fix more meta.yml * Manually update remaining modules * remove superflous echo * Fix misformatted meta.yml files * Fix yaml, was list instead of dict * fix version for bcftools Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-09-27 08:41:24 +00:00
pattern: "versions.yml"
module fastani (#695) * initiate agrvate module * remove todos [ci skip] * initiate fastani draft [ci skip] * clean stubs [ci skip] * interim commit [ci skip] * accomodate the batch/per-sample processing [ci skip] * use the meta map [ci skip] * run first test [ci skip] * remove extra spaces [ci skip] * change output file name [ci skip] * update the expected output [ci skip] * update the files used for test [ci skip] * fix typo [ci skip] * test passing [ci skip] * update the description * remove extra files * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * use meta map for batch analysis * fix the tests * rely upon tuples * Apply suggestions from code review * Update main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-09-21 19:20:26 +00:00
authors:
- "@abhi18av"
Reference in a new issue Copy permalink