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Diff Rev Age Author Log Message
(edit) @4099   4 months Peter avoid setting svn:keywords on 3rd-party files
(edit) @4098   4 months Peter minor docs change
(edit) @4097   4 months Peter use boost when functionality is available; prefer passing const& …
(edit) @4096   4 months Peter simplify code and alter private interface to reflect what's going on inside
(edit) @4095   4 months Peter docs
(edit) @4094   4 months Peter handle spaces in argument to --htmldir
(edit) @4091   4 months Peter bumping version to 0.20pre
(edit) @4089   4 months Peter updating copyright years
(edit) @4088   4 months Peter Prepare 0.19-stable branch
(edit) @4087   5 months Peter extend docs; closes #710
(edit) @4086   5 months Peter handle header and source files in their own 'Makefile.am' in line with …
(edit) @4085   5 months Peter fix include so it works in a vpath build
(edit) @4083   5 months Peter merge kendall-score branch into trunk. refs #710
(edit) @4078   5 months Peter remove trailing ws
(edit) @4076   5 months Peter fixed docs typo
(edit) @4063   8 months Peter avoid warning with autoconf 2.71
(edit) @4062   8 months Peter merged r4061 into trunk
(edit) @4060   8 months Peter prefer throw_with_nested, when info in the caught expression makes …
(edit) @4059   9 months Peter new function: round, which is rounding elements in a range with the …
(edit) @4058   9 months Peter a not-so-random number generator that can be used to fill containers …
(edit) @4057   10 months Peter closes #798; new classes BamPairBuffer? and a more general SortedBuffer?.
(edit) @4056   10 months Peter docs: fix typo and add clarification
(edit) @4055   10 months Peter remove unneeded includes
(edit) @4054   10 months Peter mention modified interface in previous commit
(edit) @4053   10 months Peter add some test for correlation(Matrix); speed up, particuarly when …
(edit) @4052   10 months Peter add description on what is optimised during the training.
(edit) @4051   11 months Peter make Target::classifier() const; closes #972
(edit) @4050   11 months Peter remove white-space
(edit) @4049   11 months Peter do not allow implicit conversion
(edit) @4048   11 months Peter add parameter allowing scaling to other than unity variance.
(edit) @4047   11 months Peter corrected includes
(edit) @4046   11 months Peter docs typo
(edit) @4045   11 months Peter add missing file
(edit) @4044   11 months Peter new function multiprocess; closes #958
(edit) @4043   11 months Peter Add capacity to Queue and PriorityQueue?, which is a feature to limit …
(edit) @4042   11 months Peter upgrade to autoconf-archive-2021.02.19
(edit) @4041   11 months Peter avoid constructing temporary substring just for comparison
(edit) @4040   11 months Peter speed-up; prefer move instead of copy
(edit) @4039   11 months Peter Using me::value_type propagated to compilation errors and created …
(edit) @4036   12 months Peter closes #963. New class PercentileConfidenceInterval?
(edit) @4035   12 months Peter skeleton for PercentileConfidenceInterval?; refs #963
(edit) @4034   12 months Peter Decouple variables for extra programs and test programs, to allow …
(edit) @4032   12 months Peter merge release 0.18.1 into trunk
(edit) @4027   12 months Peter refs #968; fix implementation of SegmentSet::insert_merge and add some …
(edit) @4026   12 months Peter add rvalue insert to SegmentSet?; closes #968.
(edit) @4025   12 months Peter add move constructor for BamPair?
(edit) @4024   13 months Peter refs #968; SegmentTree::insert taking rvalue
(edit) @4023   13 months Peter refs #968; Segment constrctor taking rvalues
(edit) @4022   13 months Peter prefer std::shared_ptr over boost
(edit) @4021   14 months Peter closes #961. Improve message in thrown exceptions.
(edit) @4019   15 months Peter merge 0.18 into trunk
(edit) @4011   15 months Peter Use std smart pointers instead of boost. Prefer initialisation of …
(edit) @4010   15 months Peter Implement move constructo and move-assignment operator for …
(edit) @4009   15 months Peter closes #965; Default constructor for DiscreteGeneral?
(edit) @4005   15 months Peter int8_t needs <cstdint> when sam.h isn't included
(edit) @4004   15 months Peter add \since tag for new exception class invalid_argument
(edit) @4003   15 months Peter Add a constructor Aligner::Cigar(string) (closes #962) Add a function …
(edit) @4001   16 months Peter Bumping version to 0.19pre
(edit) @3999   16 months Peter update copyright years
(edit) @3998   16 months Peter Prepare 0.18-stable branch
(edit) @3997   16 months Peter merge 0.17-stable branch into trunk
(edit) @3996   16 months Peter prefer std smart pointers
(edit) @3995   16 months Peter avoid using macros marked obsolete and instead use versions in LT_ …
(edit) @3994   16 months Peter simplify code
(edit) @3993   16 months Peter simplify code
(edit) @3992   16 months Peter recommend std rather than boost
(edit) @3991   17 months Peter new constructor in GenomicPosition?
(edit) @3990   17 months Peter prefer name with 'htslib' (instead of 'samtools')
(edit) @3987   17 months Peter merge release 0.17.2 into trunk
(edit) @3983   17 months Peter remove some text not relevant anymore, when we assume c++11 and htslib
(edit) @3982   17 months Peter improve docs
(edit) @3980   17 months Peter fixes #957. NegativeBinomial? now inherits from Multivariate
(edit) @3977   17 months Peter avoid accessing passed matrix (Ain) after it has been moved.
(edit) @3970   17 months Peter explain what position is when inside an insertion
(edit) @3969   17 months Peter docs typo
(edit) @3968   18 months Peter merge r3967 into trunk
(edit) @3966   18 months Peter merge changes in 0.17-stable branch (since 0.17.1) into trunk.
(edit) @3964   18 months Peter avoid warning with doxygen 1.8.19
(edit) @3963   18 months Peter new function supposed to be used by GSL error handler, resulting in a …
(edit) @3962   18 months Peter a4wide used to be the default value for PAPER_TYPE. but with modern …
(edit) @3961   18 months Peter fixes #845. Replace default GSL error handler in tests with one that …
(edit) @3960   18 months Peter closes #953. Since we are no longer using libboost_thread (or …
(edit) @3959   18 months Peter use std::mutex and friends instead of boost variants. refs #953
(edit) @3958   18 months Peter change to using std distributions instead of boost. Some distributions …
(edit) @3957   18 months Peter closes #890. Implement normalizer::UnityScaler?.
(edit) @3956   18 months Peter simplify code
(edit) @3955   18 months Peter use std::move and friend rather than internal macro (since we can …
(edit) @3954   18 months Peter bind2nd is deprecated in C++11 (and removed in c++17). Replace with …
(edit) @3953   18 months Peter refs #890. Implement RangeNormalizer?, a generalization of Centralizer …
(edit) @3949   18 months Peter use std::thread rather than boost::thread in test, refs #953
(edit) @3948   18 months Peter replace boost::thread with std::thread in Scheduler. refs #953
(edit) @3947   18 months Peter fix includes
(edit) @3946   18 months Peter use mutex and locks from std:: rather than boost::. refs #953
(edit) @3945   18 months Peter avoid hard-coding autotools in tests and instead set shell variables …
(edit) @3944   18 months Peter Since we require C++11 compiler (refs #949), no need to check if …
(edit) @3943   18 months Peter merge r3941 into trunk
(edit) @3939   18 months Peter update README to reflect that C++11 is not optional. closes #949
(edit) @3938   18 months Peter let configure fail if compiler is not a C++11 compiler. …
(edit) @3937   18 months Peter refs #949. New macro YAT_CXX11 that tests if compiler is CXX compliant …
(edit) @3936   18 months Peter merge changeset r3935 into trunk
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