Commits · dc5f4f4c0e10a0cfedacd5bdd431d0d6b6b2adb5 · Matej Lexa / nested

Feb 18, 2020
- TODOs file · dc5f4f4c
  Jakub Horváth authored Feb 18, 2020
  
  dc5f4f4c
- Fixed case where Regex wasnt matching negative numbers · 19e43d67
  Jakub Horváth authored Feb 18, 2020
  
  19e43d67
Feb 13, 2020
- working on case where no reference database is given · 8439123f
  Jakub Horváth authored Feb 13, 2020
  
  8439123f
Feb 06, 2020

Deleted TEster/TEster.egg-info/PKG-INFO, TEster/TEster.egg-info/SOURCES.txt,... · 4d464283

Jakub Horváth authored Feb 06, 2020

Deleted TEster/TEster.egg-info/PKG-INFO, TEster/TEster.egg-info/SOURCES.txt, TEster/TEster.egg-info/dependency_links.txt, TEster/TEster.egg-info/entry_points.txt, TEster/TEster.egg-info/requires.txt, TEster/TEster.egg-info/top_level.txt, TEster/build/lib/analysis/__init__.py, TEster/build/lib/testingTools/__init__.py, TEster/build/lib/testingTools/compare.py, TEster/build/lib/testingTools/detection_region_analyser.py, TEster/build/lib/testingTools/get_average_lengths.py, TEster/build/lib/testingTools/gff_parser.py, TEster/build/lib/testingTools/plot_bases.py, TEster/build/lib/testingTools/position_analysis.py, TEster/build/lib/toolchain/TEster.py, TEster/build/lib/toolchain/__init__.py, TEster/build/lib/toolchain/analyser.py, TEster/build/lib/toolchain/config_parameter.py, TEster/build/lib/toolchain/database_loader.py, TEster/build/lib/toolchain/gff_compare.py, TEster/build/lib/toolchain/input_load.py, TEster/build/lib/toolchain/nester_run.py, TEster/build/lib/toolchain/run_finder.py, TEster/build/lib/toolchain/sequence_generator.py, TEster/dist/TEster-1.0.0-py3.6.egg, TEster/testingTools/__init__.py, TEster/testingTools/compare.py, TEster/testingTools/detection_region_analyser.py, TEster/testingTools/get_average_lengths.py, TEster/testingTools/gff_parser.py, TEster/testingTools/plot_bases.py, TEster/testingTools/position_analysis.py files

4d464283

skipped fixing packaging issues, will focus on building the program and extending behavior · 1185db42
Jakub Horváth authored Feb 06, 2020

1185db42

Feb 05, 2020

fixed minor function call issues · b39300ee
Jakub Horváth authored Feb 05, 2020

b39300ee
Merge branch 'xhorvat9-branch' of gitlab.fi.muni.cz:lexa/nested into xhorvat9-branch · 74a4e4ce
Jakub Horváth authored Feb 05, 2020

74a4e4ce
moved analysis file creation to cwd · 217c8563
Jakub Horváth authored Feb 05, 2020

217c8563

Deleted TE-tester/testingTools/compare.py,... · 8bc5649b

Jakub Horváth authored Feb 05, 2020

Deleted TE-tester/testingTools/compare.py, TE-tester/testingTools/detection_region_analyser.py, TE-tester/testingTools/get_average_lengths.py, TE-tester/testingTools/gff_parser.py, TE-tester/testingTools/plot_bases.py, TE-tester/testingTools/position_analysis.py, TE-tester/toolchain/TEster.py, TE-tester/toolchain/analyser.py, TE-tester/toolchain/config_parameter.py, TE-tester/toolchain/database_loader.py, TE-tester/toolchain/gff_compare.py, TE-tester/toolchain/input_load.py, TE-tester/toolchain/nester_run.py, TE-tester/toolchain/run_finder.py, TE-tester/toolchain/sequence_generator.py, TE-tester/toolchain/temporary.txt files

8bc5649b

Fixed issue with running nester, moved generated folder to /tmp · 43da6537
Jakub Horváth authored Feb 05, 2020

43da6537

Feb 04, 2020
- Adapted the analysing part for TEster, fixed file path problems · aa5eef2e
  Jakub Horváth authored Feb 04, 2020
  
  aa5eef2e
Jan 30, 2020
- added comments and TODOs · f01201ea
  Jakub Horváth authored Jan 30, 2020
  
  f01201ea
- Created parameter class to reduce arguments · 5da338f9
  Jakub Horváth authored Jan 30, 2020
  
  5da338f9
Jan 29, 2020
- Finished implementation of changing the parameters in config.yml · 4244ed28
  Jakub Horváth authored Jan 29, 2020
  
  4244ed28
- working on the parametrisation and 'sed' command on config.yml · 83fa6d12
  Jakub Horváth authored Jan 29, 2020
  
  83fa6d12
Jan 28, 2020
- finished parameter loading and generating · 84930c56
  Jakub Horváth authored Jan 28, 2020
  
  84930c56
Jan 24, 2020
- generating code is written · c0bc0eef
  Jakub Horváth authored Jan 24, 2020
  
  c0bc0eef
Jan 19, 2020
- created the package structure for te-tester · 9a173c09
  Jakub Horváth authored Jan 19, 2020
  
  9a173c09
- created the package structure for te-tester · 44189dcf
  Jakub Horváth authored Jan 19, 2020
  
  44189dcf
Oct 04, 2019
- Merge branch 'xhorvat9-branch' of gitlab.fi.muni.cz:lexa/nested into xhorvat9-branch · f4ebed75
  Jakub Horváth authored Oct 04, 2019
  
  f4ebed75
- added false positive recognition · 6d1bd22e
  Jakub Horváth authored Oct 04, 2019
  
  6d1bd22e
Oct 02, 2019
- Update nested_generator_automated.sh · 24a09f65
  Jakub Horváth authored Oct 02, 2019
  
  24a09f65
- added multiple arguments support for LTR-finder parameters · c733e11e
  Jakub Horváth authored Oct 02, 2019
  
  c733e11e
Sep 24, 2019
- script works for the -l argument of LTR finder · 60ce4b8f
  Jakub Horváth authored Sep 24, 2019
  
  60ce4b8f
- starting work on testing scripts · 2ca92477
  Jakub Horváth authored Sep 24, 2019
  
  2ca92477
Jun 12, 2019
- fixed PNG format for tenester.png · 7b89b932
  Matej Lexa authored Jun 12, 2019
  
  7b89b932
- Merge branch 'master' of https://gitlab.fi.muni.cz/lexa/nested · 231a3895
  Matej Lexa authored Jun 12, 2019
  
  231a3895
- added te-nester block diagram · 5252a54c
  Matej Lexa authored Jun 12, 2019
  
  5252a54c
Jun 05, 2019
- Comments gone, multithreading done · adb3c45b
  Ivan Vanát authored Jun 05, 2019
  
  adb3c45b
May 28, 2019
- Current version · b6415c8f
  Ivan Vanát authored May 28, 2019
  
  b6415c8f
Apr 16, 2019
- -d should be working · 9d1551e4
  Ivan Vanát authored Apr 16, 2019
  
  9d1551e4
Apr 10, 2019
- generator more or less working · 59cb1447
  Ivan Vanát authored Apr 10, 2019
  
  59cb1447
- Annotation done · 75dd3641
  Ivan Vanát authored Apr 10, 2019
  
  75dd3641
Feb 20, 2019
- Solo ltrs done · 05398f72
  Ivan Vanát authored Feb 20, 2019
  
  05398f72
Nov 28, 2018
- Updated config template · a0973be8
  Ivan Vanát authored Nov 28, 2018
  
  a0973be8
- Added colors, negative strands, LTR split obsolete now · 08958aae
  Ivan Vanát authored Nov 28, 2018
  
  08958aae
- Upload New File · fc9093f0
  Pavel Jedlicka authored Nov 28, 2018
  
  fc9093f0
- Upload New File · ca34271f
  Pavel Jedlicka authored Nov 28, 2018
  
  ca34271f
Nov 15, 2018
- Upload New File · 521111da
  Pavel Jedlicka authored Nov 15, 2018
  
  521111da
Nov 12, 2018
- fixed final · 9fb0f7a4
  Matej Lexa authored Nov 12, 2018
  
  9fb0f7a4

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