/PhyloCSF

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Commits on Apr 14, 2014

  1. run long Travis build on multicore

    committed Apr 14, 2014
    53f8145

  2. optimize error handling and scheduling

    committed Apr 13, 2014
    0f8a5eb

  3. minor

    committed Apr 13, 2014
    b5224db

  4. mvp. need to rework exception reporting to avoid race condition with … 

    …possible output corruption
    committed Apr 13, 2014
    6408c5b

  5. Travis CI

    committed Apr 14, 2014
    b4af4fb
Commits on Apr 13, 2014

  1. a few systematic/reproducible tests

    committed Apr 13, 2014
    8369815

  2. rename PhyloCSFTest => testSim

    committed Apr 13, 2014
    59e8eda

  3. CamlPaml performance optimization: detect when Q is reversible and av… 

    …oid unnecessary use of complex numerics
    committed Jul 23, 2013
    8725d81
Commits on Aug 19, 2013

  1. CamlPaml.PhyloModel.P14n.update: simplify 'inheritance' of root prior… 

    … distribution for reversible models
    committed Aug 19, 2013
    fd3a0fb
Commits on Apr 24, 2013

  1. Update README

    committed Apr 24, 2013
    01ab7bf
Commits on Mar 20, 2013

  1. Update README

    committed Mar 20, 2013
    9d77729
Commits on Mar 19, 2013

  1. Update README

    committed Mar 19, 2013
    88a7551

  2. Add dispatch script to set PHYLOCSF_BASE

    committed Mar 19, 2013
    0cfd7b8

  3. README with simplified build instructions

    committed Mar 19, 2013
    621ab98

  4. remove submodules and simplify Makefile

    committed Mar 19, 2013
    73b6739

  5. tweaks to build against batteries 2.x

    committed Mar 19, 2013
    1f58835
Commits on Dec 25, 2012

  1. fixup whitespace

    committed Dec 25, 2012
    5590d23

  2. Change over to gsl-ocaml

    committed Dec 25, 2012
    9d8fa1f
Commits on Oct 29, 2012

  1. Update Makefile to clean CDE

    committed Oct 29, 2012
    4a6fb44

  2. bump CDE submodule version

    committed Oct 29, 2012
    47611e1
Commits on Sep 23, 2012

  1. Makefile tweak

    committed Sep 23, 2012
    642d19f
Commits on Sep 22, 2012

  1. Makefile: tweak dependencies

    committed Sep 22, 2012
    96f9769
Commits on Aug 25, 2012

  1. additional build tweaks

    committed Aug 25, 2012
    5ebf405
Commits on Aug 24, 2012

  1. Makefile: build ocaml+twt automatically

    committed Aug 24, 2012
    93c8ce9
Commits on May 5, 2012

  1. Makefile minor tweaks

    committed May 5, 2012
    11c6c2a

  2. fix --allScores (issues #7 and #8)

    committed May 5, 2012
    2ab5975
Commits on Apr 30, 2012

  1. Merge branch 'master' of github.com:mlin/PhyloCSF

    committed Apr 30, 2012
    2db5375

  2. README: fix OCAMLPATH

    committed Apr 30, 2012
    b634a29
Commits on Apr 12, 2012
  1. @iljungr

    Merge branch 'master' of github.com:mlin/PhyloCSF

    iljungr committed Apr 12, 2012
    3b0bf5a
  2. @iljungr

    Added 20flies parameter files. (Matrices are copied from 12flies, and… 

    … tree

is from modENCODE.)
    iljungr committed Apr 12, 2012
    1f40ece
Commits on Mar 24, 2012

  1. Makefile section for building CDE package

    committed Mar 24, 2012
    70fe90f
Commits on Mar 21, 2012

  1. fix ocaml+twt submodule and update README with more detailed instruct… 

    …ions
    committed Mar 21, 2012
    ec014de
Commits on Jan 21, 2012
  1. @iljungr

    Initialize random number generator in find_init to make results repro… 

    …ducible.
    iljungr committed Jan 21, 2012
    829d1b1
Commits on Jan 19, 2012
  1. @iljungr

    Tiny cleanup in PhyloCSFModel.ml. 

    To Do: There is no longer any warning when it can't find
   a good branch length parameter. It would be good to add something
   to diagnostics in llr_MaxLik to indicate this.
    iljungr committed Jan 19, 2012
    5e18fc5
  2. @iljungr

    Removed Out_of_range errors. Instead, use end of range as branch leng… 

    …th factor.
    iljungr committed Jan 19, 2012
    86ae3ff