Commits · 94b0ddc063532cb8e8502cf0ad4310b4754236c4 · phylo / fastcodeml

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Dec 17, 2013
- Add number_threads + change output file · 94b0ddc0
  akalantz authored Dec 17, 2013
  94b0ddc0
May 29, 2013
- Added exception for LRT not satisfied. · 64f47277
  mvalle authored May 29, 2013
  64f47277
May 15, 2013
- Clarified comments. · 3f15b4e8
  mvalle authored May 15, 2013
  3f15b4e8
Apr 30, 2013
- Changed exception that ends optimization in the event of LRT not satisfied · 1657c884
  mvalle authored Apr 30, 2013
  1657c884
Apr 26, 2013
- Fixed print bug in m22. · d2d46ac2
  mvalle authored Apr 26, 2013
  d2d46ac2
- fixed cut and paste error · 34f46eff
  mvalle authored Apr 26, 2013
  34f46eff
- Renamed constant to reflect the program logic · c4ac4001
  mvalle authored Apr 26, 2013
  c4ac4001
- Changed initialization of variables to be like it is done in CodeML. · bbd7141e
  mvalle authored Apr 26, 2013
  bbd7141e
Apr 10, 2013
- Added LRT optimization also to m22 optimizer · a8cdde25
  mvalle authored Apr 10, 2013
  a8cdde25
Feb 14, 2013
- Added immediate check on the optimizer code. · 363e5706
  mvalle authored Feb 14, 2013
  363e5706
Feb 05, 2013
- Removed global scaling code · 53d56791
  mvalle authored Feb 5, 2013
  53d56791
- Added guard against infinites in results · 22133b10
  mvalle authored Feb 5, 2013
  22133b10
Feb 01, 2013
- Different seed for different MPI processes. · 177d77f5
  mvalle authored Feb 1, 2013
  177d77f5
Jan 28, 2013
- Changed variable initialization logic. · fa0dfd72
  mvalle authored Jan 28, 2013
  fa0dfd72
Jan 24, 2013
- Fixed various typos in doxygen comments and in two exception messages. · 94715e19
  mvalle authored Jan 24, 2013
  94715e19
Jan 18, 2013
- Minor improvements to code and comments · 38c02be3
  mvalle authored Jan 18, 2013
  38c02be3
Dec 19, 2012
- Corrected message silencing for MPI version. · 8d4fe618
  mvalle authored Dec 19, 2012
  8d4fe618
Dec 12, 2012
- Changed message output to cout from cerr. · ee5c527a
  mvalle authored Dec 12, 2012
  ee5c527a
Dec 04, 2012
- Added print parameters. · a1a6de2f
  mvalle authored Dec 4, 2012
  a1a6de2f
Nov 24, 2012
- Removed testing code · 0b424b4e
  mvalle authored Nov 24, 2012
  0b424b4e
Oct 25, 2012
- Refactory changes (especially in Ming2) · ead0e2ec
  mvalle authored Oct 25, 2012
  ead0e2ec
Oct 18, 2012
- Added check for zero valid sites · 8ce34773
  mvalle authored Oct 18, 2012
  8ce34773
Oct 14, 2012
- Added exception for bad_alloc · 8fb3a6c0
  mvalle authored Oct 14, 2012
  8fb3a6c0
Oct 12, 2012
- Code restructuring · 6856879a
  mvalle authored Oct 12, 2012
  6856879a
Oct 09, 2012
- Cleared unused or moved code. · 038bec91
  mvalle authored Oct 9, 2012
  038bec91
Oct 02, 2012
- As default the multiplication with codon frequencies has been moved up one level · bdbb5567
  mvalle authored Oct 2, 2012
  bdbb5567
Sep 24, 2012
- Corrected bad error handling for MPI initialization · e42eeedc
  mvalle authored Sep 24, 2012
  e42eeedc
Sep 10, 2012
- Returned branch length range to the original value. · 28cb63aa
  mvalle authored Sep 10, 2012
  28cb63aa
- Split Srobability matrix class in two (one for each hypothesis) · ccae1609
  mvalle authored Sep 10, 2012
  ccae1609
Sep 04, 2012
- Fixed missing matrix computation · c1dbd3c3
  mvalle authored Sep 4, 2012
  c1dbd3c3
- Reduced size few ForestNode variables · 4f0d3f08
  mvalle authored Sep 4, 2012
  4f0d3f08
Aug 28, 2012
- Fixed Cmake problem if math lib present and not use_lapack · 9a85471a
  mvalle authored Aug 28, 2012
  9a85471a
Jul 20, 2012
- Variables changed to static to speedup parallel regions. · b85c8e2a
  mvalle authored Jul 20, 2012
  b85c8e2a
Jul 12, 2012
- Added Vampir profiling support · baba849c
  mvalle authored Jul 12, 2012
  baba849c
Jul 11, 2012
- Started DAG implementation · b1afe73d
  mvalle authored Jul 11, 2012
  b1afe73d
Jul 09, 2012
- Added correct processing for t=0 · 4f3981c6
  mvalle authored Jul 9, 2012
  4f3981c6
Jul 03, 2012
- Added option to set relative error on lnl as stopping criteria. · 49cbf98c
  mvalle authored Jul 3, 2012
  49cbf98c
Jun 25, 2012
- Added ifdef for the global scaling usage · a5fd3e77
  mvalle authored Jun 25, 2012
  a5fd3e77
- Removed scaling. · 3ca152cb
  mvalle authored Jun 25, 2012
  3ca152cb
Jun 22, 2012
- Changed unsigned int into size_t to support 64 bits. · 28ef9630
  mvalle authored Jun 22, 2012
  28ef9630