Commits · ecf659006e4a468396ade0e7b63b0b2114466581 · SOaAS / psot.repository · GitLab

10 Aug, 2017 4 commits
- Set java drmaa lib before running nextflow · ecf65900
  Lukas Jelonek authored Aug 10, 2017
  
  ecf65900
- Add --use_cluster flag to CLI and pass it to the nextflow executor · 13a05b98
  Lukas Jelonek authored Aug 10, 2017
  
  13a05b98
- Set /vol/sge-tmp as temporary folder · 7aeb1be9
  Lukas Jelonek authored Aug 10, 2017
  
  7aeb1be9
- Add chunkprocessing via drmaa · 6dbf885c
  Lukas Jelonek authored Aug 10, 2017
  
  6dbf885c
07 Aug, 2017 2 commits
- Removed threads from blast runner · 8487d7da
  Lukas Jelonek authored Aug 07, 2017
  
  8487d7da
- Fix bug: ghostx adds the whole fasta header as a query to its results · 395eb134
  Lukas Jelonek authored Aug 07, 2017
  
  395eb134
02 Aug, 2017 1 commit
- Use env import instead of changing the module search path by hand in run scripts · 4be6ffd5
  Lukas Jelonek authored Aug 02, 2017
  
  4be6ffd5
01 Aug, 2017 3 commits
- Extract profiles from config.yaml into own directory · 2e198433
  Lukas Jelonek authored Aug 01, 2017
  
  2e198433
- Add debuging profile that executes all currently existing modules · 80842e5d
  Lukas Jelonek authored Aug 01, 2017
  
  80842e5d
- Restructure project to not mix packages, scripts and executables (Fixes #21) · d8983f62
  Lukas Jelonek authored Aug 01, 2017
  
  d8983f62
31 Jul, 2017 3 commits
- Add installation section to documentation · 068a357a
  Lukas Jelonek authored Jul 31, 2017
  
  068a357a
- Add dbxref to ghostx converter. Adapt to blastp and hmmscan json format (Fixes #19) · c48bce70
  Lukas Jelonek authored Jul 31, 2017
  
  c48bce70
- hmmscan converter now uses dbxref instead of accessions (fixes #18) · 152c2c54
  Lukas Jelonek authored Jul 31, 2017
  
  152c2c54
27 Jul, 2017 1 commit
- Fix bug: Help is not shown when running without any subcommand · c921b071
  Lukas Jelonek authored Jul 27, 2017
  
  c921b071
26 Jul, 2017 8 commits
- Add chapter on concepts · 9139aefe
  Lukas Jelonek authored Jul 26, 2017
  
  9139aefe
- Add step that includes the sequence · 5b3d5301
  Lukas Jelonek authored Jul 26, 2017
  
  5b3d5301
- Add sphinx-doc based documentation · ab24c60f
  Lukas Jelonek authored Jul 26, 2017
  
  ab24c60f
- Fix bug: use swissprot accessions instead of full id · 2a3a33d6
  Lukas Jelonek authored Jul 26, 2017
  
  2a3a33d6
- Added configurable dbxref database for blastp converter script · 1a710984
  Lukas Jelonek authored Jul 26, 2017
  
  1a710984
- Add configuration whether the id or the accession should be used to blastp runner · ab4892f2
  Lukas Jelonek authored Jul 26, 2017
  
  ab4892f2
- Modified module manifest structure to allow parameters for converter scripts · 95dd1a8d
  Lukas Jelonek authored Jul 26, 2017
  
  95dd1a8d
- Fix bug: psot does not run when non yaml files are in the modules folder, e.g.... · be7fbe00
  Lukas Jelonek authored Jul 26, 2017
```
Fix bug: psot does not run when non yaml files are in the modules folder, e.g. hidden editor swap files. Now hidden files are ignored
```
  be7fbe00
21 Jun, 2017 4 commits
- Fix bug: relative execution_directory does not work · a574711d
  Lukas Jelonek authored Jun 21, 2017
  
  a574711d
- Adapt blastp result to hmmer output · 436ba8fb
  Lukas Jelonek authored Jun 21, 2017
  
  436ba8fb
- Start writing readme file · 36b489b9
  Lukas Jelonek authored Jun 21, 2017
  
  36b489b9
- Add hmmer_pfam_a to complete profile · f5160486
  Lukas Jelonek authored Jun 21, 2017
  
  f5160486
31 May, 2017 2 commits
- Fix bug: Parameter override in profile for alignment does not work · 17c50f37
  Lukas Jelonek authored May 31, 2017
  
  17c50f37
- Added a module that runs hmmscan vs PFAM-A · 505abbd0
  Lukas Jelonek authored May 31, 2017
  
  505abbd0
04 Apr, 2017 1 commit
- Moved alignment option to complete profile · 867e3500
  Lukas Jelonek authored Apr 04, 2017
  
  867e3500
23 Mar, 2017 1 commit
- Fix bug: psot info throws exceptions, due to data model changes · db0034f9
  Lukas Jelonek authored Mar 23, 2017
  
  db0034f9
22 Mar, 2017 1 commit
- Implemented live results in a subfolder of the output directory · 290bf108
  Lukas Jelonek authored Mar 22, 2017
  
  290bf108
09 Mar, 2017 4 commits
- Merge tag '0.1' into develop · 559ac65a
  Lukas Jelonek authored Mar 09, 2017
```
Initial release
```
  559ac65a
- Merge branch 'release/0.1' · 63022ed7
  Lukas Jelonek authored Mar 09, 2017
  
  63022ed7
- Add changelog · 28457915
  Lukas Jelonek authored Mar 09, 2017
  
  28457915
- Add license · abdba019
  Lukas Jelonek authored Mar 09, 2017
  
  abdba019
08 Mar, 2017 5 commits
- Added default execution in tmp directory · 72590042
  Lukas Jelonek authored Mar 08, 2017
  
  72590042
- Added module for ghostx vs swissprot · 100b4c88
  Lukas Jelonek authored Mar 08, 2017
  
  100b4c88
- Made psot script name lowercase · 623c7cd7
  Lukas Jelonek authored Mar 08, 2017
  
  623c7cd7
- Renamed signalp runner script · 55ea433f
  Lukas Jelonek authored Mar 08, 2017
  
  55ea433f
- Added a database configuration parameter to the blast wrapper. Renamed the files. · 222f3972
  Lukas Jelonek authored Mar 08, 2017
  
  222f3972