Issues

• Test that coop file and .par files agree on cooperativities.

  UIUCSinhaLab/GEMSTAT#47 · Filter by author bryan-lunt opened on Jun 4, 2018

• Create a tool to convert .par formats and free-fix format.

  UIUCSinhaLab/GEMSTAT#46 · Filter by author bryan-lunt opened on Apr 20, 2018

• Problem in Corr

  bug
  UIUCSinhaLab/GEMSTAT#45 · Filter by author shounakbhogale opened on Mar 7, 2018
  1

• Problem in coop parser (HALF_DIRECTIONAL)

  UIUCSinhaLab/GEMSTAT#43 · Filter by author bryan-lunt opened on Dec 14, 2017

• Fix return arguments in functions to use rvalue references.

  Style
  UIUCSinhaLab/GEMSTAT#41 · Filter by author bryan-lunt opened on Nov 1, 2017
  1

• Additional Parameters

  enhancement
  UIUCSinhaLab/GEMSTAT#40 · Filter by author bryan-lunt opened on Aug 15, 2017
  1

• Add scripts/submodules to get SGL/NLOpt, and an option to fetch/build/link statically.

  enhancement
  UIUCSinhaLab/GEMSTAT#38 · Filter by author bryan-lunt opened on Jun 9, 2017
  2

• cooprativity file parser is insufficiently strict.

  bug
  UIUCSinhaLab/GEMSTAT#36 · Filter by author bryan-lunt opened on Apr 12, 2017

• No example factor_info.txt file.

  UIUCSinhaLab/GEMSTAT#35 · Filter by author bryan-lunt opened on Feb 15, 2017

• The usenlopt branch throws an error if a starting point has values outside the optimization bounds?

  UIUCSinhaLab/GEMSTAT#34 · Filter by author bryan-lunt opened on Nov 29, 2016

• Meaningless message if inputs incompatible with current model provided. (IE providing coop input for models where that is not needed.)

  bug
  UIUCSinhaLab/GEMSTAT#31 · Filter by author bryan-lunt opened on Mar 3, 2016

• No activators if no factor_info file provided.

  bug
  UIUCSinhaLab/GEMSTAT#30 · Filter by author bryan-lunt opened on Aug 9, 2015
  2

  

• Carefully consider how const ExprPar& are used in ExprPredictor.cpp and INDExprPredictor.cpp, and how to fix that.

  UIUCSinhaLab/GEMSTAT#24 · Filter by author bryan-lunt opened on Apr 2, 2015 · Combined Codebase
  1

• In the master branch, somehow when the .par file is loaded, its factorThresholds are not loaded.

  bug
  UIUCSinhaLab/GEMSTAT#23 · Filter by author bryan-lunt opened on Apr 1, 2015 · Reproducible results

• pi parameter

  bugStyle
  UIUCSinhaLab/GEMSTAT#22 · Filter by author khajoue2 opened on Mar 31, 2015 · Reproducible results
  1

• Not all command-line arguments are documented.

  enhancementStyle
  UIUCSinhaLab/GEMSTAT#21 · Filter by author bryan-lunt opened on Mar 31, 2015

• If no factorinfo file is provided, assume all factors are activators? (Or throw an error.)

  enhancement
  UIUCSinhaLab/GEMSTAT#18 · Filter by author bryan-lunt opened on Mar 27, 2015

• Eliminate superfluous copying of Sequences and similar variables.

  Style
  UIUCSinhaLab/GEMSTAT#17 · Filter by author bryan-lunt opened on Mar 26, 2015

• Make Sequence objects know their own names, eliminate seqNames arrays anywhere they are used.

  Style
  UIUCSinhaLab/GEMSTAT#13 · Filter by author bryan-lunt opened on Mar 18, 2015
  1

  

• Eliminate the need to input true expression when making a predition only.

  bugenhancementStyle
  UIUCSinhaLab/GEMSTAT#11 · Filter by author bryan-lunt opened on Mar 18, 2015 · Reproducible results
  1

• Make ExprPredictor::optimize_beta obey both constraints on beta and free_fix

  enhancementhelp wanted
  UIUCSinhaLab/GEMSTAT#10 · Filter by author bryan-lunt opened on Mar 17, 2015 · Reproducible results
  1

  

• IND Gemstat is sensitive to the order of TFs, (and who knows what else?)

  bugStylewontfix
  UIUCSinhaLab/GEMSTAT#9 · Filter by author bryan-lunt opened on Mar 13, 2015 · Reproducible results
  2

  

• Fix the ExprPar::load function

  enhancement
  UIUCSinhaLab/GEMSTAT#7 · Filter by author bryan-lunt opened on Feb 11, 2015
  2

• Remove need for cooperativity file. (put it into par.)

  Style
  UIUCSinhaLab/GEMSTAT#6 · Filter by author bryan-lunt opened on Feb 11, 2015

• Need unit/regression tests.

  enhancement
  UIUCSinhaLab/GEMSTAT#4 · Filter by author bryan-lunt opened on Jan 27, 2015