Commits · e396f80f556e20bad7ce975ca55ea9f12511d75f · BICF / Astrocyte / cellranger_mkfastq

20 Jun, 2020 40 commits
- Fix params.dev · e396f80f
  Gervaise Henry authored Jun 20, 2020
  
  e396f80f
- Fix params.dev · 5dc602b6
  Gervaise Henry authored Jun 20, 2020
  
  5dc602b6
- Add dev tracking param, version 2.1.2 · 83373355
  Gervaise Henry authored Jun 20, 2020
  
  83373355
- mkfastq run on high power node, version 2.1.1 · 6b7f1c7f
  Gervaise Henry authored Jun 20, 2020
  
  6b7f1c7f
- Set version to 2.1.0 · 6f038019
  Gervaise Henry authored Jun 20, 2020
  
  6f038019
- Merge branch 'de-containerize' into 'develop' · fc4f6694
  Gervaise Henry authored Jun 20, 2020
```
De containerize

See merge request !62
```
  fc4f6694
- Remove export location settings which causes an error in biohpc · 8d8b4556
  Gervaise Henry authored Jun 20, 2020
  
  8d8b4556
- Update changelog · 2ccd01ab
  Gervaise Henry authored Jun 20, 2020
  
  2ccd01ab
- Add de-containerized note to readme: cloud compatibility · 4fca88d8
  Gervaise Henry authored Jun 20, 2020
  
  4fca88d8
- Remove containers and add modules · 0bdf504a
  Gervaise Henry authored Jun 20, 2020
  
  0bdf504a
- Fix pipeline badges · fbf1a9f7
  Gervaise Henry authored Jun 20, 2020
  
  fbf1a9f7
- Merge branch 'update' into 'develop' · e608b062
  Gervaise Henry authored Jun 20, 2020
```
Update

Closes #37, #38, and #39

See merge request !61
```
  e608b062
- Update readme · 852122be
  Gervaise Henry authored Jun 20, 2020
  
  852122be
- Update changelog · 01dae0ad
  Gervaise Henry authored Jun 20, 2020
  
  01dae0ad
- Update containers to 2.0.0 and rejigger configs · 3bf48fd1
  Gervaise Henry authored Jun 20, 2020
  
  3bf48fd1
- Use Nextflow 20.01.0 for CI · 11e56b55
  Gervaise Henry authored Jun 20, 2020
  
  11e56b55
- Fix cluser profile · cea0f52a
  Gervaise Henry authored Jun 20, 2020
  
  cea0f52a
- Remove any folder from nextflow.config · c202fca2
  Gervaise Henry authored Jun 20, 2020
  
  c202fca2
- Correct CI nextflow profile call · 2b39bbd1
  Gervaise Henry authored Jun 20, 2020
  
  2b39bbd1
- Add back nextflow.config symlink · 7af95023
  Gervaise Henry authored Jun 20, 2020
  
  7af95023
- Add biohpc option for config and remove symlinked nextflow.congig · 4969ae8e
  Gervaise Henry authored Jun 20, 2020
  
  4969ae8e
- Return configs to any dir source and add symlink for nextflow.config into repo root · 1b0fc0de
  Gervaise Henry authored Jun 20, 2020
  
  1b0fc0de
- Hardwire configs for running in repo root · 1649add2
  Gervaise Henry authored Jun 20, 2020
  
  1649add2
- Look for the configs folder anyhere · cb26903b
  Gervaise Henry authored Jun 20, 2020
  
  cb26903b
- Layer configs · a083e6cc
  Gervaise Henry authored Jun 20, 2020
  
  a083e6cc
- Run trackStart local with no container · 83282eb9
  Gervaise Henry authored Jun 20, 2020
  
  83282eb9
- Fix more comments · 6d03f843
  Gervaise Henry authored Jun 20, 2020
  
  6d03f843
- Add astrocyte param · 3d0c193f
  Gervaise Henry authored Jun 20, 2020
  
  3d0c193f
- Fix more comments · 709fc1a2
  Gervaise Henry authored Jun 20, 2020
  
  709fc1a2
- Fix more comments · 75718372
  Gervaise Henry authored Jun 20, 2020
  
  75718372
- Fix pipelineVersion var passing · 90113900
  Gervaise Henry authored Jun 20, 2020
  
  90113900
- Fix comment for pigzScript · d97d4daa
  Gervaise Henry authored Jun 20, 2020
  
  d97d4daa
- Add pipeline tracking · d84a6300
  Gervaise Henry authored Jun 20, 2020
  
  d84a6300
- Remove pigz version · 6991a125
  Gervaise Henry authored Jun 20, 2020
  
  6991a125
- Remove quote from config · fd0dc2a9
  Gervaise Henry authored Jun 20, 2020
  
  fd0dc2a9
- Add back pipeline and nextflow version to version collection · 038271af
  Gervaise Henry authored Jun 20, 2020
  
  038271af
- Update changelog · 4506e711
  Gervaise Henry authored Jun 20, 2020
  
  4506e711
- Add nextflow version and manual pipeline version to multiqc output · 25c7c97e
  Gervaise Henry authored Jun 20, 2020
  
  25c7c97e
- Add mask as a param (non-Astrocyte) · 661cb8de
  Gervaise Henry authored Jun 20, 2020
  
  661cb8de
- Remove base mask · 6d14bd6c
  Gervaise Henry authored Jun 20, 2020
  
  6d14bd6c