source: trunk

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Diff Rev Age Author Log Message
(edit) @4174   6 weeks Peter Fix major memory leak introduced during the refactoring of the Matrix …
(edit) @4173   7 weeks Peter refs #978. Add missing file.
(edit) @4172   7 weeks Peter refs #978. Wrapper classes around gsl_multimin_fminimizer.
(edit) @4171   7 weeks Peter docs: add since tag for new function
(edit) @4170   7 weeks Peter New function VCF::Data::set(2)
(edit) @4169   3 months Peter docs: don't mention libbam (since we require htslib)
(edit) @4166   4 months Peter remove trailing WS
(edit) @4164   4 months Peter Merge release 0.19.1 into trunk
(edit) @4154   4 months Peter fix spurious error
(edit) @4153   4 months Peter New class OptionVersion?. closes #824.
(edit) @4152   4 months Peter help.test was never meant as a test in itself but only as a program to …
(edit) @4150   4 months Peter add a fit function that allows providing the starting values of model …
(edit) @4149   4 months Peter docs: fix typo
(edit) @4148   4 months Peter fix docs
(edit) @4147   4 months Peter add class for random number generator from negative binomial distribution.
(edit) @4146   4 months Peter assuming that VCF::Info operator<< is used more often that ::str(), …
(edit) @4145   4 months Peter implement subset functions and constructor taking #samples (refs …
(edit) @4144   4 months Peter Add interface to construct a VCF with n samples and to select a subset …
(edit) @4143   5 months Peter upgrade to autoconf-archive 2022.02.11
(edit) @4142   5 months Peter prefer https when uploading to sourceforge
(edit) @4141   5 months Peter closes #977. Implement view into gsl_vector, gsl_matrix, and arrays.
(edit) @4140   5 months Peter allow MatrixBase? as input in inverse_svd (refs #202). In Perceptron, …
(edit) @4139   5 months Peter the same bug reported in ticket #897 for vectors is also the case for …
(edit) @4138   5 months Peter allow matrix views in nan function
(edit) @4137   5 months Peter add proxy class to allow returnning a MatrixView? from a function (same …
(edit) @4136   5 months Peter closes #975 and refs #202; use Container2DIterator as …
(edit) @4135   5 months Peter refs #975; allow conversion from Container2DIterator<C1> to …
(edit) @4134   5 months Peter avoid duplicated typedefs for mutable iterators in MatrixBase? and …
(edit) @4133   5 months Peter refs #202 and #975; fix issue with column_iterators in matrix view …
(edit) @4132   5 months Peter fixes #976 concept for Container2D now works with abstract class
(edit) @4131   5 months Peter tests for Matrix View iterators; refs #975 and #202.
(edit) @4130   5 months Peter Add function fit2 taking new class MatrixBase?. Keep the old interface …
(edit) @4129   5 months Peter refs #202. Adding classes for Matrix View (and corresponding const version)
(edit) @4128   5 months Peter fix typo. Doesn't matter what the condition is named, but let's call …
(edit) @4127   6 months Peter add needed include
(edit) @4126   6 months Peter avoid including cassert in header files.
(edit) @4125   6 months Peter when possible change public interface 'const Matrix&' and 'Matrix&' to …
(edit) @4124   6 months Peter refs #202. Rearrange structure of matrix classes. After trying a few …
(edit) @4121   7 months Peter prefer * over /
(edit) @4120   7 months Peter make the message in thrown exception more informative
(edit) @4119   8 months Peter split Matrix interface into three classes: MatrixBase?, MatrixMutable? …
(edit) @4118   8 months Peter document operations that invalidate references, views, iterators, etc. …
(edit) @4117   8 months Peter add assert
(edit) @4116   9 months Peter correct typo
(edit) @4115   9 months Peter always include config.h in source files
(edit) @4114   9 months Peter new class for one-way ANOVA test
(edit) @4113   9 months Peter fix docs typo
(edit) @4110   9 months Peter merge release 0.19 into trunk
(edit) @4106   9 months Peter docs: c++11 is required
(edit) @4105   9 months Peter implement +=, -=, and *= operators for DiagonalMatrix?; prefer using …
(edit) @4104   9 months Peter make doxygen happy
(edit) @4102   9 months Peter add wrapper function that calls std::string::contains, ::starts_with, …
(edit) @4101   9 months Peter AX_CXX_COMPILE_STDCXX_11 is just a one-line call to …
(edit) @4099   10 months Peter avoid setting svn:keywords on 3rd-party files
(edit) @4098   10 months Peter minor docs change
(edit) @4097   10 months Peter use boost when functionality is available; prefer passing const& …
(edit) @4096   10 months Peter simplify code and alter private interface to reflect what's going on inside
(edit) @4095   10 months Peter docs
(edit) @4094   10 months Peter handle spaces in argument to --htmldir
(edit) @4091   10 months Peter bumping version to 0.20pre
(edit) @4089   10 months Peter updating copyright years
(edit) @4088   10 months Peter Prepare 0.19-stable branch
(edit) @4087   10 months Peter extend docs; closes #710
(edit) @4086   10 months Peter handle header and source files in their own 'Makefile.am' in line with …
(edit) @4085   10 months Peter fix include so it works in a vpath build
(edit) @4083   10 months Peter merge kendall-score branch into trunk. refs #710
(edit) @4078   10 months Peter remove trailing ws
(edit) @4076   10 months Peter fixed docs typo
(edit) @4063   13 months Peter avoid warning with autoconf 2.71
(edit) @4062   13 months Peter merged r4061 into trunk
(edit) @4060   14 months Peter prefer throw_with_nested, when info in the caught expression makes …
(edit) @4059   15 months Peter new function: round, which is rounding elements in a range with the …
(edit) @4058   15 months Peter a not-so-random number generator that can be used to fill containers …
(edit) @4057   15 months Peter closes #798; new classes BamPairBuffer? and a more general SortedBuffer?.
(edit) @4056   15 months Peter docs: fix typo and add clarification
(edit) @4055   15 months Peter remove unneeded includes
(edit) @4054   15 months Peter mention modified interface in previous commit
(edit) @4053   15 months Peter add some test for correlation(Matrix); speed up, particuarly when …
(edit) @4052   15 months Peter add description on what is optimised during the training.
(edit) @4051   16 months Peter make Target::classifier() const; closes #972
(edit) @4050   16 months Peter remove white-space
(edit) @4049   16 months Peter do not allow implicit conversion
(edit) @4048   16 months Peter add parameter allowing scaling to other than unity variance.
(edit) @4047   16 months Peter corrected includes
(edit) @4046   16 months Peter docs typo
(edit) @4045   16 months Peter add missing file
(edit) @4044   16 months Peter new function multiprocess; closes #958
(edit) @4043   16 months Peter Add capacity to Queue and PriorityQueue?, which is a feature to limit …
(edit) @4042   16 months Peter upgrade to autoconf-archive-2021.02.19
(edit) @4041   17 months Peter avoid constructing temporary substring just for comparison
(edit) @4040   17 months Peter speed-up; prefer move instead of copy
(edit) @4039   17 months Peter Using me::value_type propagated to compilation errors and created …
(edit) @4036   17 months Peter closes #963. New class PercentileConfidenceInterval?
(edit) @4035   17 months Peter skeleton for PercentileConfidenceInterval?; refs #963
(edit) @4034   17 months Peter Decouple variables for extra programs and test programs, to allow …
(edit) @4032   17 months Peter merge release 0.18.1 into trunk
(edit) @4027   18 months Peter refs #968; fix implementation of SegmentSet::insert_merge and add some …
(edit) @4026   18 months Peter add rvalue insert to SegmentSet?; closes #968.
(edit) @4025   18 months Peter add move constructor for BamPair?
(edit) @4024   18 months Peter refs #968; SegmentTree::insert taking rvalue
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