Commits · 7298ac7d4d19f5d20b9ad35e5831f18dc0a0b328 · Mustafa Tekpinar / PRESCOTT · GitLab

27 May, 2023 2 commits
- Added reformat.pl script to the image. · 7298ac7d
  Mustafa Tekpinar authored May 28, 2023
  
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- Added hhsuite to the Dockerfile. · fbe4ff55
  Mustafa Tekpinar authored May 27, 2023
  
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26 May, 2023 1 commit
- Changed Dockerfile slightly to include more tools. · e6303622
  Mustafa Tekpinar authored May 26, 2023
  
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25 May, 2023 1 commit
- Improved prot_normPred_evolCombiTransposed.txt output. · fe0d5632
  Mustafa Tekpinar authored May 25, 2023
  
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24 May, 2023 1 commit
- Transposed classical GEMME output for better legibility! · 461e81ee
  Mustafa Tekpinar authored May 24, 2023
  
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05 May, 2023 1 commit
- Created docs folder and its content with sphinx. · ae5d1c5f
  Mustafa Tekpinar authored May 05, 2023
  
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15 Apr, 2023 1 commit
- Changed max_load from 2*10^6 to 8*10^6. · a46cad97
  Mustafa Tekpinar authored Apr 15, 2023
  
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14 Apr, 2023 1 commit
- Changed java memory from 4096 to 8192 for big proteins. · 9fa8780f
  Mustafa Tekpinar authored Apr 14, 2023
  
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06 Apr, 2023 1 commit
- Added esgemme logo to the README.md. · 910931e6
  Mustafa Tekpinar authored Apr 06, 2023
  
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03 Apr, 2023 1 commit
- Removed Linux grep command calls. · cce7cb89
  Mustafa Tekpinar authored Apr 03, 2023
  
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31 Mar, 2023 1 commit
- Commented unused code in pred.R and computePred.R · 2d117e24
  Mustafa Tekpinar authored Mar 31, 2023
  
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30 Mar, 2023 1 commit
- The program won't write *_pred_evolEpi.txt and *_pred_evolInd.txt files anymore. · 5647766c
  Mustafa Tekpinar authored Mar 30, 2023
  
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29 Mar, 2023 1 commit
- Some more documentation and Dockerfile · f5de1a26
  Mustafa Tekpinar authored Mar 29, 2023
  
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28 Mar, 2023 1 commit
- Updated README file. · 2403b757
  Mustafa Tekpinar authored Mar 28, 2023
  
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20 Mar, 2023 1 commit
- Changed normWeightMode options. · e7a7207f
```
Convert trace->tjet, maxhalftracepchalftracecvhalfcvpc->max
and ssjetormax->sstjetormax in ESGEMME.
```
  Mustafa Tekpinar authored Mar 20, 2023
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16 Mar, 2023 1 commit
- Separated data from code by putting all data into data/ folder. · eb8c519b
  Mustafa Tekpinar authored Mar 16, 2023
  
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15 Mar, 2023 6 commits
- Improved cleanTheMess fucntion esgemme.py · facba872
  Mustafa Tekpinar authored Mar 15, 2023
  
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- Commented the lines containing pssm output. · 7f40b9ac
  Mustafa Tekpinar authored Mar 15, 2023
  
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- Commented bfactor-related unused code. · 8e2a131c
  Mustafa Tekpinar authored Mar 15, 2023
  
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- Corrected a bug in computePred.R when there is only one mutation in the mut file. · 83ba006d
  Mustafa Tekpinar authored Mar 15, 2023
  
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- Changed default.conf file copy process from bash to more Pythonic way. · f469ecb8
  Mustafa Tekpinar authored Mar 15, 2023
  
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- Removed dynamics related functions: calcPercentDFI, calcBfactors and getBfactors. · b20bee53
  Mustafa Tekpinar authored Mar 15, 2023
  
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10 Mar, 2023 1 commit
- Removed unused normWeightMode options in esgemme.py and computePred.R. · 5ffaa0e3
  Mustafa Tekpinar authored Mar 10, 2023
  
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09 Mar, 2023 2 commits
- Removed some commented/unused code from computePred.R · 4e510021
  Mustafa Tekpinar authored Mar 09, 2023
  
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- Changed editConfJET to editConfJETpython to reduce bash dependency. · 4e82cee0
  Mustafa Tekpinar authored Mar 09, 2023
  
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08 Mar, 2023 2 commits
- Changed SGEMME_PATH to ESGEMME_PATH · aabe1568
  Mustafa Tekpinar authored Mar 08, 2023
  
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- Removed (unused) bin calculation based jetormax option from computePred.R. · e7a02f1e
  Mustafa Tekpinar authored Mar 08, 2023
  
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06 Mar, 2023 4 commits
- Removed unnecessary combinedv[1-4] normWeightMode options. · e1a03717
  Mustafa Tekpinar authored Mar 06, 2023
  
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- Added calculateSecondaryStructure and countCoilSegments functions. · 7a52b1c1
  Mustafa Tekpinar authored Mar 06, 2023
  
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- Removed local SGEMME_DEV_PATH calls. · ecd6817e
  Mustafa Tekpinar authored Mar 06, 2023
  
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- Added ssjetormax normalization weight mode. · 90e5f3e6
  Mustafa Tekpinar authored Mar 06, 2023
  
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21 Feb, 2023 2 commits
- Removed gemmeAnal.py. Not needed anymore. · fcd3b21b
  Mustafa Tekpinar authored Feb 21, 2023
  
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- Moved editConf and launchJET from gemmeAnal.py to sgemme.py · 8f6e1b64
  Mustafa Tekpinar authored Feb 21, 2023
  
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17 Feb, 2023 1 commit
- Removed some commented lines in launchJET function in gemmeAnal.py. · 9f20b4c1
  Mustafa Tekpinar authored Feb 17, 2023
  
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16 Feb, 2023 1 commit
- Moved createPDB function in gemmeAnal.py to sgemme.py. · 96910f1f
  Mustafa Tekpinar authored Feb 16, 2023
  
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14 Feb, 2023 2 commits
- Moved getNbSeq function from gemmeAnal.py to sgemme.py. · 594c5761
  Mustafa Tekpinar authored Feb 14, 2023
  
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- Moved the main function under if(__name__) block in sgemme.py. · 7b3f2711
  Mustafa Tekpinar authored Feb 14, 2023
  
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01 Feb, 2023 2 commits
- Added jetormax to the normalization options · a823960e
  Mustafa Tekpinar authored Feb 01, 2023
  
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- Moved extractQuerySeq from gemmeAnal.py to sgemme.py. · 54a3c39a
  Mustafa Tekpinar authored Feb 01, 2023
  
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19 Jan, 2023 1 commit
- Added a timer function to sgemme.py to show total compute time. · faafebd8
  Mustafa Tekpinar authored Jan 19, 2023
  
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