Commits · 2ef85c6b095779a46ba874c4b21746aa66288852 · GUDMAP_RBK / RNA-seq

Jan 19, 2021
- Fix elif · 2ef85c6b
  Gervaise Henry authored 4 years ago
  
  2ef85c6b
- Handle blank endness better · 41f6e91a
  Gervaise Henry authored 4 years ago
  
  41f6e91a
- Only used fastq's named correctly · d78689ad
  Gervaise Henry authored 4 years ago
  
  d78689ad
- Physically move fastqc process up · 51f9e8ff
  Gervaise Henry authored 4 years ago
  
  51f9e8ff
- Fix fastq run before trim · 7d4badfe
  Gervaise Henry authored 4 years ago
  
  7d4badfe
- Move fastqc before trim · 67b0e41e
  Gervaise Henry authored 4 years ago
  
  67b0e41e
- Allow unexpected values for stranded/spike/species · 8a91ad1b
  Gervaise Henry authored 4 years ago
  
  8a91ad1b
Jan 18, 2021
- Move mem param to sort · 527d9358
  Gervaise Henry authored 4 years ago
  
  527d9358
- Copy samtools mem param fix to align sample · 0bfa5ba9
  Gervaise Henry authored 4 years ago
  
  0bfa5ba9
- Double excape * · 4ed64765
  Gervaise Henry authored 4 years ago
  
  4ed64765
- Add -m to samtools sort · 5988eb64
  Gervaise Henry authored 4 years ago
  
  5988eb64
Jan 14, 2021
- Fix script name · effe7d20
  Gervaise Henry authored 4 years ago
  
  effe7d20
- Fix mistype error · f839e74f
  Gervaise Henry authored 4 years ago
  
  f839e74f
- Output execution run rid to tracking for fail and failPre Execution · 413e1ce6
  Gervaise Henry authored 4 years ago
  
  413e1ce6
- Split failPreExecution into 2 processes · 982092fb
  Gervaise Henry authored 4 years ago
  
  982092fb
Jan 12, 2021
- Fix complete/fail date tracking passing · 71592755
  Gervaise Henry authored 4 years ago
  
  71592755
Jan 11, 2021
- Fix json uploads to tracking · 312a6047
  Gervaise Henry authored 4 years ago
  
  312a6047
- Fix date ouput for finalize execution run table · 0b6fa2aa
  Gervaise Henry authored 4 years ago
  
  0b6fa2aa
- Fix execution run rid upload to tracking table · 8b71fe3c
  Gervaise Henry authored 4 years ago
  
  8b71fe3c
- Pass whole json file to curl for lamda into AWS qc table · f8c2c290
  Gervaise Henry authored 4 years ago
  
  f8c2c290
- Add newlines to trackStart · f1f92c5b
  Gervaise Henry authored 4 years ago
  
  f1f92c5b
- Add execution run rid to tracking table · 99d29c0d
  Gervaise Henry authored 4 years ago
  
  99d29c0d
- Revert fail execution run · a93462f9
  Gervaise Henry authored 4 years ago
  
  a93462f9
- Update QC report table · 18900014
  Gervaise Henry authored 4 years ago
  
  18900014
- Add status table updates with error and successful · beb4e59b
  Gervaise Henry authored 4 years ago
  
  beb4e59b
- Add GUDMAP/RBK tracking to trackStart · eb9e0354
  Gervaise Henry authored 4 years ago
  
  eb9e0354
Jan 09, 2021
- Add median TIN to mRNA_QC table · ac1c64c4
  Gervaise Henry authored 4 years ago
  
  ac1c64c4
Jan 07, 2021
- Fix fastq force · 10101561
  Gervaise Henry authored 4 years ago
  
  10101561
- Fix infer with species error · 860af5bd
  Gervaise Henry authored 4 years ago
  
  860af5bd
- Fix infer with species error · bb1d67d1
  Gervaise Henry authored 4 years ago
  
  bb1d67d1
- Fix infer with species error · 135b3e66
  Gervaise Henry authored 4 years ago
  
  135b3e66
- Fix infer with species error · 3afb03da
  Gervaise Henry authored 4 years ago
  
  3afb03da
- Fix infer with species error · 9b27c82b
  Gervaise Henry authored 4 years ago
  
  9b27c82b
- Fix infer with species error · ce03bbf2
  Gervaise Henry authored 4 years ago
  
  ce03bbf2
- Fix infer with species error · 4c1da891
  Gervaise Henry authored 4 years ago
  
  4c1da891
- Fix infer with species error · cd641050
  Gervaise Henry authored 4 years ago
  
  cd641050
- Fix infer with species error · d08bd26e
  Gervaise Henry authored 4 years ago
  
  d08bd26e
- Fix infer with species error · 364653c7
  Gervaise Henry authored 4 years ago
  
  364653c7
- Fix infer metadata · 7c606bac
  Gervaise Henry authored 4 years ago
  
  7c606bac
- Fix infer metadata · 2c26323b
  Gervaise Henry authored 4 years ago
  
  2c26323b