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Commits on Mar 25, 2016

• merging develop

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• doc -- fixed docs and examples

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• doc: cleaned up examples and documentation

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• make - added saving of git info when making a distribution

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Commits on Mar 22, 2016

• msweep - fixed bug that occurred when sweep started at a fractional generation

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• file.cc - silenced warnings re: unused function return values

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Commits on Mar 21, 2016

• msweep - added the loading of trajectories

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• util - added a macro for exception handling

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Commits on Mar 17, 2016

• merging master

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• [test] sample_stats_extra - added computation of r along with r2

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Commits on Mar 6, 2016

• testing - updating exact tests for cygwin

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• testing - sample_stats_extra - added computation of hetStats (theta)

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• historical: exp_change_size - if size change is small, treat as change_size

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Commits on Feb 26, 2016

• doc updates

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Commits on Feb 25, 2016

• docs - removed extraneous readme file

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• Merge branch 'master' of github.com:broadinstitute/cosi2

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• merging f-sweep-in-mult-pops

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• merging f-sweep-in-mult-pops

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• [f-sweep-in-mult-pops] test - added options for LD histogramming in sample_stats_extra

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Commits on Feb 23, 2016

• [f-sweep-in-mult-pops] OUTPUTCHG test - update exact cases to work on mac

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• [f-sweep-in-mult-pops] build - compilation fixed to compile on mac

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• [f-sweep-in-mult-pops] made exp_change_size2 the default; updated tests accordingly.

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• [f-sweep-in-mult-pops] test - sample_stats_extra - added gathering of additional statistics

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• [f-sweep-in-mult-pops] genmap - fix zero-recomb-rate check

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Commits on Feb 20, 2016

• [f-sweep-in-mult-pops] removed debug prints

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• [f-sweep-in-mult-pops] freq-only: added makeRangeLeafset. still bugs in freq-only impl.

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Commits on Feb 15, 2016

• [f-sweep-in-mult-pops] utils - vecmap - added a map implementation implemented by a vector

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• [f-sweep-in-mult-pops] typedval - added type conversion from TypedVal<T,int> to size_t

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• [f-sweep-in-mult-pops] types - added a cosi-specific type converter infrastructure

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• [f-sweep-in-mult-pops] boost - adding elements for various containers

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Commits on Feb 8, 2016

• [f-sweep-in-mult-pops] build - compatibility changes for older compilers

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• [f-sweep-in-mult-pops] adding gitignores in boost

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• [f-sweep-in-mult-pops] boost -- added files for property maps and unordered maps/sets

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Commits on Feb 4, 2016

• [f-sweep-in-mult-pops] generalmath - compiler compatibility fix

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Commits on Feb 3, 2016

• [f-sweep-in-mult-pops] genmap - fixed issue with catching stream failure exception

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