Commits · b5762dd714eda6e6fbf481865427bca82ce14d7c · SOaAS / psot.repository · GitLab

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Nov 28, 2017
- Add targetp module to complete and debug profile. · b5762dd7
  hmueller authored 7 years ago
  
  b5762dd7
- Use string type organism_mode instead of boolean plantmode parameter. · df258571
  hmueller authored 7 years ago
  
  df258571
- Change organism type parameter from boolean to string type. · e2a4af22
  hmueller authored 7 years ago
  
  e2a4af22
- Add targetp to supported tools. · 8b8267bd
  hmueller authored 7 years ago
  
  8b8267bd
- Add TargetP to json converter. · 29590252
  hmueller authored 7 years ago
  
  29590252
Nov 27, 2017
- Add targetp module. · 3c3f0eb1
  hmueller authored 7 years ago
  
  3c3f0eb1
- Add run_targetp.py script. · 193e2cef
  hmueller authored 7 years ago
  
  193e2cef
- Add targetp path to config.yaml. · 51c09db6
  hmueller authored 7 years ago
  
  51c09db6
Nov 21, 2017
- Update changelog · 535a948c
  Lukas Jelonek authored 7 years ago
  
  535a948c
- Replace drmaa with SGE · 301d74c2
  Lukas Jelonek authored 7 years ago
  
  301d74c2
Oct 26, 2017
- Update PFAM · d9b2d590
  Lukas Jelonek authored 7 years ago
  
  d9b2d590
Aug 10, 2017
- Set java drmaa lib before running nextflow · ecf65900
  Lukas Jelonek authored 7 years ago
  
  ecf65900
- Add --use_cluster flag to CLI and pass it to the nextflow executor · 13a05b98
  Lukas Jelonek authored 7 years ago
  
  13a05b98
- Set /vol/sge-tmp as temporary folder · 7aeb1be9
  Lukas Jelonek authored 7 years ago
  
  7aeb1be9
- Add chunkprocessing via drmaa · 6dbf885c
  Lukas Jelonek authored 7 years ago
  
  6dbf885c
Aug 07, 2017
- Removed threads from blast runner · 8487d7da
  Lukas Jelonek authored 7 years ago
  
  8487d7da
- Fix bug: ghostx adds the whole fasta header as a query to its results · 395eb134
  Lukas Jelonek authored 7 years ago
  
  395eb134
Aug 02, 2017
- Use env import instead of changing the module search path by hand in run scripts · 4be6ffd5
  Lukas Jelonek authored 7 years ago
  
  4be6ffd5
Aug 01, 2017
- Extract profiles from config.yaml into own directory · 2e198433
  Lukas Jelonek authored 7 years ago
  
  2e198433
- Add debuging profile that executes all currently existing modules · 80842e5d
  Lukas Jelonek authored 7 years ago
  
  80842e5d
- Restructure project to not mix packages, scripts and executables (Fixes #21) · d8983f62
  Lukas Jelonek authored 7 years ago
  
  d8983f62
Jul 31, 2017
- Add installation section to documentation · 068a357a
  Lukas Jelonek authored 7 years ago
  
  068a357a
- Add dbxref to ghostx converter. Adapt to blastp and hmmscan json format (Fixes #19) · c48bce70
  Lukas Jelonek authored 7 years ago
  
  c48bce70
- hmmscan converter now uses dbxref instead of accessions (fixes #18) · 152c2c54
  Lukas Jelonek authored 7 years ago
  
  152c2c54
Jul 27, 2017
- Fix bug: Help is not shown when running without any subcommand · c921b071
  Lukas Jelonek authored 7 years ago
  
  c921b071
Jul 26, 2017
- Add chapter on concepts · 9139aefe
  Lukas Jelonek authored 7 years ago
  
  9139aefe
- Add step that includes the sequence · 5b3d5301
  Lukas Jelonek authored 7 years ago
  
  5b3d5301
- Add sphinx-doc based documentation · ab24c60f
  Lukas Jelonek authored 7 years ago
  
  ab24c60f
- Fix bug: use swissprot accessions instead of full id · 2a3a33d6
  Lukas Jelonek authored 7 years ago
  
  2a3a33d6
- Added configurable dbxref database for blastp converter script · 1a710984
  Lukas Jelonek authored 7 years ago
  
  1a710984
- Add configuration whether the id or the accession should be used to blastp runner · ab4892f2
  Lukas Jelonek authored 7 years ago
  
  ab4892f2
- Modified module manifest structure to allow parameters for converter scripts · 95dd1a8d
  Lukas Jelonek authored 7 years ago
  
  95dd1a8d
- Fix bug: psot does not run when non yaml files are in the modules folder, e.g.... · be7fbe00
  Lukas Jelonek authored 7 years ago
  
  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
Jun 21, 2017
- Fix bug: relative execution_directory does not work · a574711d
  Lukas Jelonek authored 7 years ago
  
  a574711d
- Adapt blastp result to hmmer output · 436ba8fb
  Lukas Jelonek authored 7 years ago
  
  436ba8fb
- Start writing readme file · 36b489b9
  Lukas Jelonek authored 7 years ago
  
  36b489b9
- Add hmmer_pfam_a to complete profile · f5160486
  Lukas Jelonek authored 7 years ago
  
  f5160486
May 31, 2017
- Fix bug: Parameter override in profile for alignment does not work · 17c50f37
  Lukas Jelonek authored 7 years ago
  
  17c50f37
- Added a module that runs hmmscan vs PFAM-A · 505abbd0
  Lukas Jelonek authored 7 years ago
  
  505abbd0
Apr 04, 2017
- Moved alignment option to complete profile · 867e3500
  Lukas Jelonek authored 7 years ago
  
  867e3500