Commits · 7bdf8fba10c46d508d4bbc8c2bc1248592b67ea1 · BICF / Astrocyte / cellranger_mkfastq

06 Jan, 2020 12 commits
- Remove the last of the incompatible version calls · 7bdf8fba
  Gervaise Henry authored Jan 06, 2020
  
  7bdf8fba
- Update main.nf · 9d802817
  Gervaise Henry authored Jan 06, 2020
  
  9d802817
- Remove fully pipeline and nextflow versions · 5e0d5900
  Gervaise Henry authored Jan 06, 2020
  
  5e0d5900
- Remove nextflow workflow version variables · 96fb6c87
  Gervaise Henry authored Jan 06, 2020
```
To be compatible with nextflow 0.31.0
```
  96fb6c87
- Change path input to file for nextflow 0.31.0 · 13b8fc75
  Gervaise Henry authored Jan 06, 2020
  
  13b8fc75
- Try have astrocyte load nextflow 19.09.0 module · 11b119d2
  Gervaise Henry authored Jan 06, 2020
  
  11b119d2
- Update astrocyte yml to load singularity · bbe6e84e
  Gervaise Henry authored Jan 06, 2020
  
  bbe6e84e
- Merge branch 'develop' into 'master' · e978df9d
  Gervaise Henry authored Jan 06, 2020
```
Develop

See merge request !59
```
  e978df9d
- Remove indev from version · 4dd84b9c
  Gervaise Henry authored Jan 06, 2020
  
  4dd84b9c
- Update CHANGELOG.md · addba41f
  Gervaise Henry authored Jan 06, 2020
  
  addba41f
- Change pipeline version from 1.4.0_indev to 2.0.0_indev · 0d0a93a0
  Gervaise Henry authored Jan 06, 2020
  
  0d0a93a0
- Update templates · cf24e3cd
  Gervaise Henry authored Jan 06, 2020
  
  cf24e3cd
01 Jan, 2020 1 commit
- Add note to readme about awscli configure · 04c2cc2c
  Gervaise Henry authored Jan 01, 2020
  
  04c2cc2c
31 Dec, 2019 10 commits
- Remove unpopulated process in biohpc_local.config · 7523063a
  Gervaise Henry authored Dec 31, 2019
  
  7523063a
- Remove unpopulated process in biohpc_local.config · 7d25a3b8
  Gervaise Henry authored Dec 31, 2019
  
  7d25a3b8
- Add known bug for aws · ff70f39f
  Gervaise Henry authored Dec 31, 2019
  
  ff70f39f
- Update aws resources to based on BioHPC cluster resource usage · e8dafa71
  Gervaise Henry authored Dec 31, 2019
  
  e8dafa71
- Try to get aws to copy bcl.tar.gz properly into untar process with path instead of file · 2b371110
  Gervaise Henry authored Dec 31, 2019
  
  2b371110
- Merge branch '39-aws' into 'develop' · 942677d9
  Gervaise Henry authored Dec 31, 2019
```
39 aws

See merge request !57
```
  942677d9
- Fix simple2 ci · d1f74a99
  Gervaise Henry authored Dec 31, 2019
  
  d1f74a99
- Fix CI to use standard config (biohpc with cluster) · ba85c18a
  Gervaise Henry authored Dec 31, 2019
  
  ba85c18a
- Make ready for merge · fe8fef7f
  Gervaise Henry authored Dec 31, 2019
  
  fe8fef7f
- Squash many small commits to get working · 428d3688
  Gervaise Henry authored Dec 28, 2019
  
  428d3688
28 Dec, 2019 2 commits
- Add max timeout for aws to 1hr · 7ecda2fb
  Gervaise Henry authored Dec 28, 2019
  
  7ecda2fb
- Set scripts as inputs · 458eec97
  Gervaise Henry authored Dec 28, 2019
  
  458eec97
27 Dec, 2019 15 commits
- Remove singularity automount from biohpc config · 028dbf32
  Gervaise Henry authored Dec 27, 2019
  
  028dbf32
- Add default docker image to aws config · 057cedcd
  Gervaise Henry authored Dec 27, 2019
  
  057cedcd
- Remove unused precesses in aws configs · 2c877846
  Gervaise Henry authored Dec 27, 2019
  
  2c877846
- Update aws configs · f8a74a61
  Gervaise Henry authored Dec 27, 2019
  
  f8a74a61
- Temporarily remove pytests and multiqc artifact · ef176f42
  Gervaise Henry authored Dec 27, 2019
  
  ef176f42
- Remove cellranger ran fastqc output · 4ee9a681
  Gervaise Henry authored Dec 27, 2019
  
  4ee9a681
- Update mkfastq outputs · 2427f43a
  Gervaise Henry authored Dec 27, 2019
  
  2427f43a
- Remove SLURM options from mkfastq process · 6564fa23
  Gervaise Henry authored Dec 27, 2019
  
  6564fa23
- Remove conda env from process · d61b199d
  Gervaise Henry authored Dec 27, 2019
  
  d61b199d
- Remove logging from conda env in checkDesignFile to see if in base image · 1fac8db4
  Gervaise Henry authored Dec 27, 2019
  
  1fac8db4
- Try putting conda env to install packages into checkDesignFile · 0596edd0
  Gervaise Henry authored Dec 27, 2019
  
  0596edd0
- Temp remove version and multiqc processes · 121b371f
  Gervaise Henry authored Dec 27, 2019
  
  121b371f
- Version bump to bicfbase and python3 · 26bdc114
  Gervaise Henry authored Dec 27, 2019
  
  26bdc114
- Fix countDesign queue · 98a2e2cc
  Gervaise Henry authored Dec 27, 2019
  
  98a2e2cc
- Add singularity automount · 63a1f19a
  Gervaise Henry authored Dec 27, 2019
  
  63a1f19a