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Ticket Summary Owner Type Priority Milestone Component
#534 "./configure --without-boost" returns "old boost found" Jari Häkkinen defect trivial yat 0.6 build
#535 qQuantileNormalization does not work with missing values represened with NaNs and weight 0 Jari Häkkinen defect critical yat 0.5.3 normalizer
#536 sorting range with NaNs does not behave as desired Jari Häkkinen defect major yat 0.6 utility
#548 make doc gets stuck in latex prompt Jari Häkkinen defect major yat 0.5.4 documentation
#558 Flaws in configure script Jari Häkkinen defect major yat 0.5.5 build
#570 bootstrap fails after changeset:2083 Jari Häkkinen defect major yat 0.6 build
#577 convert files to UTF-8 Jari Häkkinen request major yat 0.6 test
#615 yat-config --ldflags do not include -L/$libdir Jari Häkkinen defect major yat 0.6.1 build
#620 use AC_CONFIG_HEADER to genrate yat/utility/version.h Jari Häkkinen enhancement minor yat 0.8 build
#687 concept_check doesn't compile with gcc3 Jari Häkkinen defect major yat 0.8 build
#714 The thread safe rng test fails to compile on MacOS Lion Jari Häkkinen defect major yat 0.9 test
#722 yat.pc misses boost libs Jari Häkkinen defect major yat 0.9.1 build
#766 PP #DEFINEs in global namespace Jari Häkkinen defect major yat 0.11 utility
#786 deprecate utility::Range Jari Häkkinen request major yat 0.13 utility
#789 ./configure CXXFLAGS="-g -O3" Jari Häkkinen discussion trivial yat 0.12 build
#837 Geometric Distribution Jari Häkkinen request major yat 0.14 random
#849 Segment equality Jari Häkkinen request major yat 0.14 utility
#850 yat.pc should use htslib.pc Jari Häkkinen defect minor yat 0.13.1 build
#862 samtools sort fails with samtools 1.2 and older Jari Häkkinen defect minor yat 0.13.1 test
#876 RNG::instance is not thread safe Jari Häkkinen defect major yat 0.14 random
#914 Access number of threads in Scheduler Jari Häkkinen request trivial yat 0.17 utility
#917 undefined reference to symbol 'pthread_condattr_setclock@@GLIBC_2.3.3' Jari Häkkinen defect major build
#926 yat_lt_link_ifelse_test.sh and yat_m4_with_bam_test.sh fail because they use the wrong compiler Jari Häkkinen defect minor yat 0.17 test
#934 configure doesn't find libhts 1.10 Jari Häkkinen defect critical yat 0.17 build
#936 Scheduler skips jobs (sometimes) Jari Häkkinen defect critical yat 0.17 utility
#938 BamPairIterator does not pass test::Suite::input_iterator_test Jari Häkkinen defect trivial yat 0.18 test
#944 missing boost header <boost/random/non_central_chi_squared_distribution.hpp> Jari Häkkinen defect major test
#960 warnings from new autoconf Jari Häkkinen discussion minor yat 0.18 build
#962 Aligner::Cigar(string) constructor Jari Häkkinen request major yat 0.19 utility
#970 SegmentTree compare functions do not compile Jari Häkkinen defect major yat 0.18.1 utility
#39 Fix NCC Markus Ringnér request major classifier
#59 NCC should accept external quality weights Markus Ringnér enhancement major yat 0.3 (Public release) classifier
#71 Test that output from classifier::DataLook1D can be read by gslapi::vector Markus Ringnér defect minor yat 0.3 (Public release) test
#98 is_int("1.2") returns true Markus Ringnér defect minor yat 0.3 (Public release) utility
#100 gslapi::matrix::nan() Markus Ringnér request major yat 0.2 classifier
#104 Why state_ in Sampler and SubsetGenerator? Markus Ringnér request minor yat 0.2 classifier
#119 NCC and weights Markus Ringnér request major yat 0.2 classifier
#129 avoid kernels in NCC Markus Ringnér request major yat 0.2 classifier
#131 MatrixLookupWeighted constructor taking ONE utility::matrix Markus Ringnér request minor yat 0.3 (Public release) classifier
#174 IRRank class is defined in two files! Markus Ringnér defect critical yat 0.2 classifier
#182 Implement Nearest Neighbour Classifier Markus Ringnér request major yat 0.4 classifier
#235 SNR score objects can not be created Markus Ringnér defect major yat 0.4 statistics
#237 NCC::predict is incorrect for weights (not equal zero or unity) Markus Ringnér defect major yat 0.4 classifier
#250 The new vector_distance structure should replace the old Distance structure. Markus Ringnér enhancement major yat 0.4 classifier
#254 Document distance, euclidean_distance, ... Markus Ringnér request minor yat 0.4 documentation
#259 KNN/NBC/NCC should support both MatrixLookup and MatrixLookupWeighted Markus Ringnér defect major yat 0.4 classifier
#260 DataLookup2D should have a operator<< Markus Ringnér enhancement minor yat 0.4 classifier
#272 vector_distance is not an optimal name Markus Ringnér enhancement minor yat 0.4 statistics
#295 Document Distance in NCC/KNN Markus Ringnér enhancement major yat 0.4 documentation
#310 remove DataLookup2D from SubsetGenerator Markus Ringnér request major yat 0.4 classifier
#311 templatize EnsembleBuilder Markus Ringnér request major yat 0.4 classifier
#312 SVM should not inherit from SupervisedClassifer Markus Ringnér request major yat 0.4 classifier
#314 SVM::predict should not work on DataLookup2D Markus Ringnér defect major yat 0.4 classifier
#317 Use classes Index in DataLookup2D Markus Ringnér request major yat 0.4 classifier
#318 SupervisedClassifier::train take data and target Markus Ringnér request major yat 0.4 classifier
#322 Classes templatized on Distance should take Distance in constructor Markus Ringnér enhancement minor yat 0.4 classifier
#323 Where should we document concepts? Markus Ringnér discussion minor yat 0.4 documentation
#333 Remove DataLookup2D in SupervisedClassifier interface Markus Ringnér request major yat 0.4 classifier
#334 return Derived* from make_classifier not SupervisedClassifier Markus Ringnér enhancement trivial yat 0.4 classifier
#383 why both operator() and operator[] in Target? Markus Ringnér discussion trivial yat 0.5 classifier
#901 perceptron Markus Ringnér request major yat 0.16 classifier
#4 Split weighted and non-weighted regressors Peter enhancement major yat 0.2 statistics
#6 Rework theplu::statistics::AveragerWeighted Peter request major statistics
#9 theplu::statistics::regression::Local::fit (std::ostream &s, const double fraction, const u_int step_size=1) Peter defect major yat 0.2 statistics
#12 Implement copy constructor for SVM::KernelView Peter request major classifier
#14 add reset function to SVM Peter enhancement trivial classifier
#15 Copy constructor for SVM Peter enhancement trivial classifier
#19 Averager.n() return unsigned Peter enhancement minor yat 0.3 (Public release) statistics
#20 implement WilcoxonFoldChange Peter enhancement minor yat 0.5 statistics
#22 Implement class AveragerPairWeighted Peter enhancement minor statistics
#23 redesign OnedimensionalWeighted Peter request minor yat 0.2 statistics
#24 Averager classes should have constructors taking gslapi::vectors Peter enhancement major yat 0.3 (Public release) statistics
#25 approximative calculation of p-value in Fisher's exact test Peter enhancement minor yat 0.2 statistics
#26 throw exception in statistics::Fisher Peter request minor yat 0.2 statistics
#27 Create Classifier::Ensemble Peter request major classifier
#28 speed up CrossSplitting Peter defect major classifier
#29 NaN in weighted statistics and Score Peter defect critical statistics
#30 ConsensusInputRanker: move CrossSplitting Peter enhancement minor classifier
#33 reimplement ROC::score_weighted Peter enhancement minor yat 0.3 (Public release) statistics
#35 modify interface to CrossSplitting Peter request major classifier
#36 add weights to CrossSplitter Peter defect major classifier
#37 rewrite Weighted Statistics documentation Peter request minor documentation
#38 add weights to SVM (kernel) Peter defect major classifier
#40 Feature selection interaction with sampler Peter defect major classifier
#41 averager_test fails using compiler optimization flags Peter defect major statistics
#43 AveragerPair return 'nan' for some member functions when no data has been added to it. Peter request major yat 0.3 (Public release) classifier
#44 templates for median and percentile should not sort but rather require sorted objects. Peter defect minor yat 0.3 (Public release) statistics
#45 test median functions Peter request minor yat 0.3 (Public release) test
#46 median functions should be coherent Peter defect minor yat 0.3 (Public release) statistics
#47 CrossSplitter::validation_data does not return constant number of samples Peter defect critical classifier
#48 implement SVM::predict Peter request major classifier
#49 ConsensusInputRanker.add(InputRanker) Peter enhancement minor yat 0.3 (Public release) classifier
#50 implement matrix.binary_weight(void) Peter request major classifier
#52 Nan*0 treatment in GaussianKernelFunction Peter defect major yat 0.3 (Public release) classifier
#56 SVM convergence problem Peter request trivial yat 0.2 documentation
#57 implement Naive Baysian Classifier Peter request major yat 0.3 (Public release) classifier
#60 Split CrossSplitter into Sampler and SubSet Peter request major yat 0.2 classifier
#61 add operator[] DataLookup1D Peter enhancement major yat 0.3 (Public release) classifier
#64 re-write score functions and Averagers taking vectors Peter enhancement major yat 0.4 statistics
#65 Add brief descriptions to classes Peter request major yat 0.2 documentation
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