Commit graph

7 commits

Author SHA1 Message Date
Harshil Patel
49da864287
Update versions key in meta.yml for all modules (#787) 2021-10-03 08:20:26 +01:00
Harshil Patel
7b3315591a
Remove def software lines and emit versions channel as plural (#780)
* Remove def software line

* Replace version with versions in emit statement

* Fix default software names
2021-10-01 14:04:56 +01:00
Gregor Sturm
906577873b
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 09:41:24 +01:00
James A. Fellows Yates
561f16fe74
update: MALT build version bump (#699)
* Specify more guidelines on input channels

* Linting

* Updates based on code review

* Update README.md

* Fix broken sentence

* Bump versions

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-09-15 16:46:29 +01:00
James A. Fellows Yates
26fc617983
Update: MALT_RUN (#706)
* Specify more guidelines on input channels

* Linting

* Updates based on code review

* Update README.md

* Fix broken sentence

* Bump MALT versions for MALT-run

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-09-15 16:37:46 +01:00
James A. Fellows Yates
292e8eceb9
module: MALT/RUN (#646)
* Specify more guidelines on input channels

* Linting

* Updates based on code review

* Update README.md

* Fix broken sentence

* Add MALT with incomplete tests

* Parameter typo fix

* Clean up test yaml

* Finish MALT module prior UNZIP and MALT_BUILD modiules

* Add required modules for tests

* Sync test out with malt-build

* Fix input parameters in tests based on final build module

* Update modules/malt/run/meta.yml

Co-authored-by: Gregor Sturm <mail@gregor-sturm.de>

Co-authored-by: Gregor Sturm <mail@gregor-sturm.de>
2021-08-04 11:06:08 +02:00
James A. Fellows Yates
6913da9d2d
module: MALT/BUILD (#645)
* Specify more guidelines on input channels

* Linting

* Updates based on code review

* Update README.md

* Fix broken sentence

* Start MALT-build

* Start MALT build (missing meta files and outputs specS)

* Local tests

* Correct test map_type

* Finished module, just waiting for UNZIP module to finalise tests

* Correct tests in preparation for Unzip

* Ouptut log file too

* Update meta.yml

* Rename log file

* Rename log file

* Remove debugging stuff

* Add Unzip module

* Linting update

* Linting update

* Fix input db

* Fix db file in cmd

* Update modules/malt/build/main.nf

* Update modules/malt/build/main.nf

* Update main.nf
2021-08-03 16:24:19 +02:00