Commits · 458a3c11a2a0bbd850716818ec4f70d5c9115006 · SOaAS / psot.repository · GitLab

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Dec 12, 2017
- added resolve_dbxrefs.py to nextflow.py (not working yet) · 458a3c11
  lmueller authored 7 years ago
  
  458a3c11
Dec 11, 2017
- added taxonomy dbxrefs to testfile · 57eb76c6
  lmueller authored 7 years ago
  
  57eb76c6
Dec 07, 2017
- bundle dbxrefs before retrieving them => fewer calls · f2096889
  lmueller authored 7 years ago
  
  f2096889
- adapted resolve_dbxrefs.py to input format · c0db9a40
  lmueller authored 7 years ago
  
  c0db9a40
Dec 05, 2017
- added not working dbxrefs to test file · 9d4265ae
  lmueller authored 7 years ago
  
  9d4265ae
Dec 04, 2017
- use retrieve function in dbxref retriever.py instead of calling every retriever skript separately · e4a26419
  lmueller authored 7 years ago
  
  e4a26419
Nov 30, 2017
- fixed tmhmm json format · e9e5fe63
  lmueller authored 7 years ago
  
  e9e5fe63
- fixed pfam bug in resolve_dbxrefs.py · bf196bb1
  lmueller authored 7 years ago
  
  bf196bb1
Nov 29, 2017
- got resolve_dbxrefs.py working, still unstable · 5ea07f52
  lmueller authored 7 years ago
  
  5ea07f52
Nov 16, 2017
- created resolve_dbxrefs.py (not working yet) and according testfiles · 89c7cfc7
  lmueller authored 7 years ago
  
  89c7cfc7
Nov 13, 2017
- added tmhmm to list of required tools in installation doc · 9db2c064
  lmueller authored 7 years ago
  
  9db2c064
Nov 09, 2017
- fixed bug in topology-string resolver · e17691d6
  lmueller authored 7 years ago
  
  e17691d6
- Merge branch 'tmhmm' of git.computational.bio.uni-giessen.de:SOaAS/psot into tmhmm · 4f2302e3
  lmueller authored 7 years ago
  
  4f2302e3
Nov 08, 2017
- added method to resolve topology-string from tmhmm output · f08f7db6
  lmueller authored 7 years ago
  
  f08f7db6
Oct 26, 2017
- Add tmhmm to fast profile · 8626d4b9
  Lukas Jelonek authored 7 years ago
  
  8626d4b9
Oct 18, 2017
- added tmhmm module · 202ab9c1
  lmueller authored 7 years ago
  
  202ab9c1
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