Commits · a14ae6a40c5b9b48d6d7d9a233f52a11cd55d9fd · genotoul-bioinfo / ng6

26 Sep, 2018 2 commits
- Add number of reads/bases useful · a14ae6a4
  Maxime Manno authored Sep 26, 2018
  
  a14ae6a4
- Remove L50 and add read and bases useful #74 · 18f7eb12
  Maxime Manno authored Sep 26, 2018
  
  18f7eb12
20 Sep, 2018 2 commits
- Merge branch 'nG6-Slurm' into 'master' · ff867bc4
  Gerald Salin authored Sep 20, 2018
```
Ng6 slurm

Closes #44

See merge request !11
```
  ff867bc4
- modification to not use all the CPU for the -t parameter (workers · 26ee82de
  Gerald Salin authored Sep 20, 2018
```
thread) as flash also uses i/O threads
```
  26ee82de
17 Sep, 2018 9 commits
- add logging + update jflow · 3989c196
  Gerald Salin authored Sep 17, 2018
  
  3989c196
- add a news for he latest version · a1f1b665
  Gerald Salin authored Sep 17, 2018
  
  a1f1b665
- #51 get cpu and RAM for slurm · a7a40cca
  Gerald Salin authored Sep 17, 2018
  
  a7a40cca
- update nG6 source download · 088e4e05
  Gerald Salin authored Sep 17, 2018
  
  088e4e05
- #72 · 35c45791
  Gerald Salin authored Sep 17, 2018
  
  35c45791
- add logging · b9792f29
  Gerald Salin authored Sep 17, 2018
  
  b9792f29
- #73 call gzip with its absolute path · 5c006f81
  Gerald Salin authored Sep 17, 2018
  
  5c006f81
- add concatenatefastq component in the return statement of · 58b2cef3
  Gerald Salin authored Sep 17, 2018
```
illumina_process
```
  58b2cef3
- #72 replace delete files in purge_directory · 592b26d2
  Gerald Salin authored Sep 17, 2018
  
  592b26d2
07 Sep, 2018 2 commits
- #51 · 0bfa01f5
  Gerald Salin authored Sep 07, 2018
  
  0bfa01f5
- correct bug adding self.runobj to fastqilluminafilter component · cfe987de
  Gerald Salin authored Sep 07, 2018
  
  cfe987de
06 Sep, 2018 5 commits
- logging, refactoring · 62e909d6
  Gerald Salin authored Sep 06, 2018
  
  62e909d6
- logging + add runobj argument to components to be able to access current · ecf239b6
  Gerald Salin authored Sep 06, 2018
```
run information
```
  ecf239b6
- add logging · b0cf01d8
  Gerald Salin authored Sep 06, 2018
  
  b0cf01d8
- #37 · 67ba07d9
  Gerald Salin authored Sep 06, 2018
  
  67ba07d9
- Merge branch 'nG6-Slurm' of https://forgemia.inra.fr/genotoul-bioinfo/ng6.git into nG6-Slurm · a6e392b2
  Gerald Salin authored Sep 06, 2018
  
  a6e392b2
05 Sep, 2018 3 commits
- Merge branch 'nG6-Slurm-rules' into 'nG6-Slurm' · 5ccb90b5
  Celine Noirot authored Sep 05, 2018
```
N g6 slurm rules

See merge request !10
```
  5ccb90b5
- include rules (exclude and requiredIf) in workflows · fcd072d4
  Celine Noirot authored Sep 05, 2018
  
  fcd072d4
- debug jflow · 2618d195
  Celine Noirot authored Sep 05, 2018
  
  2618d195
04 Sep, 2018 3 commits
- include align-subset-reads parameter in the illumina_rnaseq pipeline · f98bcc47
  Gerald Salin authored Sep 04, 2018
  
  f98bcc47
- add logging · 99f4eebf
  Gerald Salin authored Sep 04, 2018
  
  99f4eebf
- test if directory exist before trying to delete its content to avoid · 22440680
  Gerald Salin authored Sep 04, 2018
```
errors
```
  22440680
03 Sep, 2018 1 commit
- optimization of the addrawfiles step, aligenemnt step with · d25986df
  Gerald Salin authored Sep 03, 2018
```
subset_seqfiles
add md5sum
```
  d25986df
31 Aug, 2018 6 commits
- subset component finalized / parallelized · 81cbb809
  Gerald Salin authored Aug 31, 2018
  
  81cbb809
- #66 insert the component to align against a subset of the initial reads · 186b5cc6
  Gerald Salin authored Aug 31, 2018
  
  186b5cc6
- add a componenet to extract a subset of a file containing reads · 9b007cae
  Gerald Salin authored Aug 31, 2018
  
  9b007cae
- add md5sum component · 4aae8298
  Gerald Salin authored Aug 31, 2018
  
  4aae8298
- typo correction · dd0cc693
  Gerald Salin authored Aug 31, 2018
  
  dd0cc693
- #68 added md5sum un run.py > archive_files · 3889cb6b
  Gerald Salin authored Aug 31, 2018
  
  3889cb6b
30 Aug, 2018 1 commit
- sort runs by runid desc, so that the last runs are displayed first · ee8bc392
  Gerald Salin authored Aug 30, 2018
  
  ee8bc392
28 Aug, 2018 2 commits
- add some logging · 42773f31
  Gerald Salin authored Aug 28, 2018
  
  42773f31
- add an html attribute to allow rsa encryption of the password · fc4ad216
  Gerald Salin authored Aug 28, 2018
  
  fc4ad216
27 Aug, 2018 1 commit
- https://docs.typo3.org/typo3cms/extensions/core/7.6/Changelog/7.4/Breaking-679... · 24bae687
  Gerald Salin authored Aug 27, 2018
```
https://docs.typo3.org/typo3cms/extensions/core/7.6/Changelog/7.4/Breaking-67932-FeloginTemplateHasBeenChanged.html
```
  24bae687
14 Aug, 2018 3 commits
- remove error_log · 965be8e4
  Gerald Salin authored Aug 14, 2018
  
  965be8e4
- #60 and #61 : update user information · 41991831
  Gerald Salin authored Aug 14, 2018
  
  41991831
- #60 creation of user failed · 8f57f19e
  Gerald Salin authored Aug 14, 2018
  
  8f57f19e