Commits · ac502364e550edae3e7bf17cd625c5e6116c22b5 · GUDMAP_RBK / RNA-seq

Mar 12, 2020
- Fix silly error in align unit ci pytest · ac502364
  Gervaise Henry authored 5 years ago
  
  ac502364
- Fix deduped unit ci sorted bam/bai prefix · 1e50ff6e
  Gervaise Henry authored 5 years ago
  
  1e50ff6e
- Add bai test to dedup unit ci pytest · f50feedd
  Gervaise Henry authored 5 years ago
  
  f50feedd
- Fix bai in align unit ci pytest · c076037b
  Gervaise Henry authored 5 years ago
  
  c076037b
- Fix bam indexing output name to .bam.bai · 70e6fa19
  Gervaise Henry authored 5 years ago
  
  70e6fa19
- Fix tin input in unit CO · 3e7d2beb
  Gervaise Henry authored 5 years ago
  
  3e7d2beb
- Add unit test for inferMetadata · a2a809c7
  Gervaise Henry authored 5 years ago
  
  a2a809c7
- Remove R aggregation · ac21c821
  Gervaise Henry authored 5 years ago
  
  ac21c821
- Clean inference, add tin · 12996d71
  Gervaise Henry authored 5 years ago
  
  12996d71
Feb 28, 2020
- Mod some infer meta · 4a68865f
  Gervaise Henry authored 5 years ago
  
  4a68865f
Feb 14, 2020
- Add infer_experiment.py · 3c12e9c1
  Gervaise Henry authored 5 years ago
  
  3c12e9c1
- Add missing gitlab-ci.yml for new getData · 841dcea3
  Gervaise Henry authored 5 years ago
  
  841dcea3
- Fix pytest for new getData unit · 50212074
  Gervaise Henry authored 5 years ago
  
  50212074
- Test bdbag fetch on text file · de33d175
  Gervaise Henry authored 5 years ago
  
  de33d175
- Fix if not exist in bdbagFetch.sh · 66591ecd
  Gervaise Henry authored 5 years ago
  
  66591ecd
- Fix if not exist in bdbagFetch.sh · cf08008a
  Gervaise Henry authored 5 years ago
  
  cf08008a
- Fix if not exist in bdbagFetch.sh · 42a16c69
  Gervaise Henry authored 5 years ago
  
  42a16c69
- Fix ci lint · 85bd9077
  Gervaise Henry authored 5 years ago
  
  85bd9077
- CI unit: getRef cp local, getData test version of script to fetch txt · 61cc48e6
  Gervaise Henry authored 5 years ago
  
  61cc48e6
- Merge branch '8-makeBigWig' of git.biohpc.swmed.edu:GUDMAP_RBK/RNA-seq into 35-RSeQC · 0c88d32c
  Gervaise Henry authored 5 years ago
  
  0c88d32c
Feb 12, 2020
- Update .gitlab-ci.yml · ff7f8483
  Jonathan Gesell authored 5 years ago
  
  ff7f8483
- Update .gitlab-ci.yml · 3dff84f8
  Jonathan Gesell authored 5 years ago
  
  3dff84f8
- Updated to include reference selection · d9895270
  Jonathan Gesell authored 5 years ago
  
  d9895270
Feb 11, 2020
- Merge branch '8-makeBigWig' of git.biohpc.swmed.edu:gudmap_rbk/rna-seq into 8-makeBigWig · dcb7aee4
  Jonathan Gesell authored 5 years ago
```
"Merging local branch with online work."
```
  dcb7aee4
- Corrected path for hisat2 with new directory names · 00643d40
  Jonathan Gesell authored 5 years ago
  
  00643d40
- Update the local ref location for CI · 4d598c06
  Gervaise Henry authored 5 years ago
  
  4d598c06
- Add local ref · df73c7e9
  Gervaise Henry authored 5 years ago
  
  df73c7e9
Feb 10, 2020
- Corrected typo in .gitlab-ci.yml · 73a6b3d6
  Jonathan Gesell authored 5 years ago
  
  73a6b3d6
- Fix temp comment out reference s3 bucket · bf9d4f71
  Gervaise Henry authored 5 years ago
  
  bf9d4f71
- Add temp local ref location · 770f2860
  Gervaise Henry authored 5 years ago
  
  770f2860
- Add ascii art · 4c87cdef
  Gervaise Henry authored 5 years ago
  
  4c87cdef
- Update .gitlab-ci.yml · 819e87c2
  Jonathan Gesell authored 5 years ago
  
  819e87c2
Feb 07, 2020
- Merge branch '8-makeBigWig' of git.biohpc.swmed.edu:gudmap_rbk/rna-seq into 8-makeBigWig · bbaa391b
  Jonathan Gesell authored 5 years ago
```
Merge in the pytests for makeBigWig
```
  bbaa391b
- Added pytest for makeBigWig. · 9363735e
  Jonathan Gesell authored 5 years ago
  
  9363735e
- Update .gitlab-ci.yml · 5d2d6ef6
  Jonathan Gesell authored 5 years ago
  
  5d2d6ef6
- Update .gitlab-ci.yml · 9f4b63ed
  Jonathan Gesell authored 5 years ago
  
  9f4b63ed
- Update .gitlab-ci.yml to include makeBigWig step. · 26d11700
  Jonathan Gesell authored 5 years ago
  
  26d11700
Feb 04, 2020
- Merge branch '9-fastqc' into 'develop' · eac0a7c5
  Venkat Malladi authored 5 years ago
```
Resolve "process_fastqc"

Closes #9

See merge request !18
```
  eac0a7c5
- Fix fastqc pytest name · 645546fa
  Gervaise Henry authored 5 years ago
  
  645546fa
Feb 03, 2020
- Add resources to AWS configs · 850d99f8
  Gervaise Henry authored 5 years ago
  
  850d99f8