Commits · 2f4bd01f4f0553fe36dc5159d2b93d8b42ac0e07 · SOaAS / psot.repository · GitLab

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Oct 30, 2019
- Add pepstats tool by fabian schnecko · 2f4bd01f
  Lukas Jelonek authored Oct 30, 2019
  
  2f4bd01f
May 14, 2019
- Add bias to hmmer domain target · c365b241
  Lukas Jelonek authored May 14, 2019
  
  c365b241
May 13, 2019
- Include evaule in hmmer result. Use name as fallback if no accession is available · f37b7117
  Lukas Jelonek authored May 13, 2019
  
  f37b7117
- Include score in ghostx result conversion · 0f9b5e49
  Lukas Jelonek authored May 13, 2019
  
  0f9b5e49
May 08, 2019
- Add max hits argument to run_ghostx.py · c8fafcb6
  Lukas Jelonek authored May 8, 2019
  
  c8fafcb6
Apr 15, 2019
- Improve targetp json structure by writing out Localization and preserving case... · c2479045
  Lukas Jelonek authored Apr 15, 2019
  c2479045
Mar 14, 2019
- Fix bug: some ghostx installations output the help page on stderr · 6f212599
  Lukas Jelonek authored Mar 14, 2019
  
  6f212599
Mar 13, 2019
- Fix bug: blastp converter ignores sequences without hits · c120d853
  Lukas Jelonek authored Mar 13, 2019
  
  c120d853
- Fix bug: hmmer and ghostx don't include sequences with no results · 7a52f072
  Lukas Jelonek authored Mar 13, 2019
  
  7a52f072
Mar 01, 2019
- default_repo again in project directory; error handling in database script · e332e233
  Marc authored Mar 1, 2019
  
  e332e233
Feb 14, 2019
- Fix missing dependendies in run scripts · 4f7f7870
  Lukas Jelonek authored Feb 14, 2019
  
  4f7f7870
Feb 13, 2019
- Replace system() call by subprocess call and proper error code handling · 7ef0be7b
  Lukas Jelonek authored Feb 13, 2019
  
  7ef0be7b
Apr 10, 2018
- Fix bug: run_blastp ignores evalue · 03a93d3f
  Lukas Jelonek authored Apr 10, 2018
  
  03a93d3f
Apr 03, 2018
- Decouple default bcf psot profiles from psot · 43fbb547
  Lukas Jelonek authored Apr 3, 2018
  
  43fbb547
Jan 24, 2018
- Add setup script. Move all resources to psot module · d32426b0
  Lukas Jelonek authored Jan 23, 2018
  
  d32426b0
Dec 13, 2017
- Prevent writing of empty string to json if mature lookup fails. · e626a12c
  hmueller authored Dec 13, 2017
  
  e626a12c
- Include mature sequence in json output if available. · 4dda3c47
  hmueller authored Dec 13, 2017
  
  4dda3c47
- Make signalp run script accept optional include_mature flag. · f72da30b
  hmueller authored Dec 13, 2017
  
  f72da30b
Dec 12, 2017
- added resolve_dbxrefs.py to nextflow.py (not working yet) · 458a3c11
  lmueller authored Dec 12, 2017
  
  458a3c11
Dec 08, 2017
- Fix loss of last fasta entry. Solves #31 · 171d47d8
  hmueller authored Dec 8, 2017
  
  171d47d8
Dec 07, 2017
- bundle dbxrefs before retrieving them => fewer calls · f2096889
  lmueller authored Dec 7, 2017
  
  f2096889
- Define enumerated header filename in run scripts and pass it to header... · ad087cc8
  hmueller authored Dec 7, 2017
  ad087cc8
- Minor improvements in code readability. · 610ed0d9
  hmueller authored Dec 7, 2017
  
  610ed0d9
- Include fasta header conversion and restoration steps in targetp module scripts. · 61c16030
  hmueller authored Dec 7, 2017
  
  61c16030
- adapted resolve_dbxrefs.py to input format · c0db9a40
  lmueller authored Dec 7, 2017
  
  c0db9a40
- Remove redundant sequence id field from results section of targetp in json output. · a2f733d3
  hmueller authored Dec 7, 2017
  
  a2f733d3
- Pass directory instead of file between targetp run and convert processes. · 7b15f5e7
  hmueller authored Dec 7, 2017
  
  7b15f5e7
Dec 06, 2017
- Minor code cleanup. · 6ddf8881
  hmueller authored Dec 6, 2017
  
  6ddf8881
- Include fasta header conversion and restoration steps in ghostx module scripts. · 6f1bf564
  hmueller authored Dec 6, 2017
  
  6f1bf564
Dec 05, 2017
- Add script to restore original seq ids in json results file from enumeration. · 05fd6a68
  hmueller authored Dec 5, 2017
  
  05fd6a68
- Change filename and manipulate file in place instead of creating a new one. · 045ac89e
  hmueller authored Dec 5, 2017
  
  045ac89e
- Add script for exchange of fasta headers with enumeration. · 42345e6a
  hmueller authored Dec 5, 2017
  
  42345e6a
Dec 04, 2017
- use retrieve function in dbxref retriever.py instead of calling every retriever skript separately · e4a26419
  lmueller authored Dec 4, 2017
  
  e4a26419
- Make sequence ID extraction from fasta header more robust so that it works... · f404a49c
  hmueller authored Dec 4, 2017
  f404a49c
- Replace string with empty list to indicate no matches. · 22f5b240
  hmueller authored Dec 4, 2017
  
  22f5b240
Dec 01, 2017
- Minor code cosmetics · c6f18289
  hmueller authored Dec 1, 2017
  
  c6f18289
- Write "no match found" for results list when query had no matches. · 1e084c41
  hmueller authored Dec 1, 2017
  
  1e084c41
- Implement simple storage of query sequence names. Currently relies on resolution of issue #22. · 6a80c032
  hmueller authored Dec 1, 2017
  
  6a80c032
Nov 30, 2017
- Cleanup code · 8dbbeca4
  Lukas Jelonek authored Nov 30, 2017
  
  8dbbeca4
- fixed tmhmm json format · ec72c85d
  lmueller authored Nov 30, 2017 and Lukas Jelonek committed Nov 30, 2017
  
  ec72c85d