#83 |
Change name of the project!!
|
Jari Häkkinen
|
request
|
blocker
|
yat 0.2
|
classifier
|
#84 |
Move gslapi stuff to utility
|
Jari Häkkinen
|
defect
|
blocker
|
yat 0.2
|
gslapi
|
#107 |
bug in ensemble.build()
|
Peter
|
defect
|
blocker
|
yat 0.2
|
classifier
|
#132 |
SubsetGenerator with FeatureSelector crashes
|
Peter
|
defect
|
blocker
|
yat 0.2
|
classifier
|
#147 |
KernelLookup::test_kernel does not work
|
Peter
|
defect
|
blocker
|
yat 0.2
|
classifier
|
#184 |
Two versions of Doxygen pages.
|
Jari Häkkinen
|
request
|
blocker
|
yat 0.4
|
documentation
|
#193 |
Serious flaw: matrix mutation functionality and view does not work properly
|
Jari Häkkinen
|
defect
|
blocker
|
yat 0.3 (Public release)
|
utility
|
#220 |
Release 0.3 does not compile on SuSE 10.1!!!
|
Jari Häkkinen
|
defect
|
blocker
|
yat 0.3.1
|
build
|
#222 |
'make test' fails on lev and shakespeare
|
Jari Häkkinen
|
defect
|
blocker
|
yat 0.3.1
|
test
|
#370 |
using boost
|
Peter
|
request
|
blocker
|
yat 0.5
|
build
|
#949 |
require c++11 compiler
|
Peter
|
request
|
blocker
|
yat 0.18
|
build
|
#11 |
random class does not accept seed!!!
|
Jari Häkkinen
|
defect
|
critical
|
yat 0.3 (Public release)
|
random
|
#29 |
NaN in weighted statistics and Score
|
Peter
|
defect
|
critical
|
|
statistics
|
#47 |
CrossSplitter::validation_data does not return constant number of samples
|
Peter
|
defect
|
critical
|
|
classifier
|
#94 |
Target.random_shuffle()
|
Peter
|
enhancement
|
critical
|
yat 0.3 (Public release)
|
classifier
|
#96 |
Feature selection should not be part of SupervisedClassifier
|
Peter
|
enhancement
|
critical
|
yat 0.2
|
classifier
|
#148 |
use pointer dynamic_cast when failure is ecpected
|
Peter
|
enhancement
|
critical
|
yat 0.4
|
classifier
|
#172 |
Should the int SVD::solve(const utility::vector& b, utility::vector x) be changed ...
|
Jari Häkkinen
|
defect
|
critical
|
yat 0.2
|
utility
|
#174 |
IRRank class is defined in two files!
|
Markus Ringnér
|
defect
|
critical
|
yat 0.2
|
classifier
|
#201 |
const matrix& matrix::operator*=(const matrix& other)
|
Jari Häkkinen
|
defect
|
critical
|
yat 0.3 (Public release)
|
utility
|
#205 |
resize matrix
|
Peter
|
enhancement
|
critical
|
yat 0.3 (Public release)
|
utility
|
#226 |
Create how to release document
|
Jari Häkkinen
|
request
|
critical
|
yat 0.4
|
documentation
|
#227 |
Generated documentation should end up in another directory
|
Peter
|
request
|
critical
|
yat 0.4
|
documentation
|
#236 |
Predictions using Ensemble with feature selection does not work properly
|
Peter
|
defect
|
critical
|
yat 0.4
|
classifier
|
#256 |
vector matrix view design - could it be improved?
|
Peter
|
request
|
critical
|
yat 0.4
|
utility
|
#285 |
vector assignment causes segmentation error
|
Peter
|
defect
|
critical
|
yat 0.4
|
utility
|
#287 |
avoid using dynamic_cast in Subset and SupervisedClassifer
|
Peter
|
specification
|
critical
|
yat 0.4
|
classifier
|
#299 |
redesign of matrix class
|
Jari Häkkinen
|
request
|
critical
|
yat 0.4
|
utility
|
#345 |
EnsembleBuilder::predict does not work
|
Peter
|
defect
|
critical
|
yat 0.4
|
classifier
|
#374 |
Make documentation cron job report failures through email to maintainer.
|
Jari Häkkinen
|
enhancement
|
critical
|
yat 0.5
|
documentation
|
#406 |
svn repo and trac server location moved
|
Peter
|
request
|
critical
|
yat 0.4.2
|
build
|
#440 |
StrideIterator - StrideIterator ignores the stride
|
Peter
|
defect
|
critical
|
yat 0.5
|
test
|
#467 |
disable implicit conversion between Vector and its View siblings
|
Peter
|
request
|
critical
|
yat 0.5
|
utility
|
#489 |
Check template requirements
|
Peter
|
request
|
critical
|
yat 0.7
|
test
|
#535 |
qQuantileNormalization does not work with missing values represened with NaNs and weight 0
|
Jari Häkkinen
|
defect
|
critical
|
yat 0.5.3
|
normalizer
|
#579 |
EnsembleBuilder::predict doesn't work
|
Peter
|
defect
|
critical
|
yat 0.5.6
|
classifier
|
#603 |
Upgrade boost version requirmeent to 1.35
|
Peter
|
discussion
|
critical
|
yat 0.6
|
test
|
#724 |
regression in NeedlemanWunsch
|
Peter
|
defect
|
critical
|
yat 0.9.1
|
utility
|
#733 |
build failure with static libbam
|
Peter
|
defect
|
critical
|
yat 0.10.1
|
build
|
#794 |
support for htslib
|
Peter
|
request
|
critical
|
yat 0.13
|
build
|
#863 |
boost thread not detected
|
Peter
|
defect
|
critical
|
yat 0.13.1
|
build
|
#873 |
skip lvalue requirement in Distance concept
|
Peter
|
defect
|
critical
|
yat 0.14
|
utility
|
#927 |
PriorityQueue only stores unique elements
|
Peter
|
defect
|
critical
|
yat 0.16.1
|
utility
|
#930 |
cyclic references in Scheduler::Job
|
Peter
|
defect
|
critical
|
yat 0.17
|
utility
|
#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
|
#939 |
remove support for libbam
|
Peter
|
request
|
critical
|
yat 0.18
|
build
|
#1 |
Checking of write permissions to files in FileIO does not work
|
Jari Häkkinen
|
defect
|
major
|
yat 0.2
|
utility
|
#2 |
Add exceptions to gsl usage
|
Jari Häkkinen
|
request
|
major
|
yat 0.2
|
gslapi
|
#4 |
Split weighted and non-weighted regressors
|
Peter
|
enhancement
|
major
|
yat 0.2
|
statistics
|
#5 |
Does this view work properly
|
Jari Häkkinen
|
request
|
major
|
|
gslapi
|
#6 |
Rework theplu::statistics::AveragerWeighted
|
Peter
|
request
|
major
|
|
statistics
|
#7 |
Document theplu::utility::IO_error
|
Jari Häkkinen
|
defect
|
major
|
yat 0.2
|
documentation
|
#8 |
Member theplu::random::DiscreteUniform::DiscreteUniform (const u_long n)
|
Jari Häkkinen
|
request
|
major
|
yat 0.2
|
random
|
#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
|
#10 |
theplu::utility::read_to_double (std::istream &is, std::vector< double > &vec)
|
Jari Häkkinen
|
defect
|
major
|
yat 0.2
|
utility
|
#12 |
Implement copy constructor for SVM::KernelView
|
Peter
|
request
|
major
|
|
classifier
|
#17 |
constness of views do not work ... or do they?
|
Jari Häkkinen
|
defect
|
major
|
yat 0.2
|
gslapi
|
#18 |
const vector matrix::operator*(const vector&) const
|
Jari Häkkinen
|
defect
|
major
|
yat 0.2
|
utility
|
#21 |
General view for vector and matrix
|
Jari Häkkinen
|
enhancement
|
major
|
yat 0.3 (Public release)
|
gslapi
|
#24 |
Averager classes should have constructors taking gslapi::vectors
|
Peter
|
enhancement
|
major
|
yat 0.3 (Public release)
|
statistics
|
#27 |
Create Classifier::Ensemble
|
Peter
|
request
|
major
|
|
classifier
|
#28 |
speed up CrossSplitting
|
Peter
|
defect
|
major
|
|
classifier
|
#35 |
modify interface to CrossSplitting
|
Peter
|
request
|
major
|
|
classifier
|
#36 |
add weights to CrossSplitter
|
Peter
|
defect
|
major
|
|
classifier
|
#38 |
add weights to SVM (kernel)
|
Peter
|
defect
|
major
|
|
classifier
|
#39 |
Fix NCC
|
Markus Ringnér
|
request
|
major
|
|
classifier
|
#40 |
Feature selection interaction with sampler
|
Peter
|
defect
|
major
|
|
classifier
|
#41 |
averager_test fails using compiler optimization flags
|
Peter
|
defect
|
major
|
|
statistics
|
#42 |
constructor matrix(void), should it exist?
|
Jari Häkkinen
|
request
|
major
|
yat 0.2
|
gslapi
|
#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
|
#48 |
implement SVM::predict
|
Peter
|
request
|
major
|
|
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
|
#53 |
Constructor gslapi::vector(void)
|
Jari Häkkinen
|
defect
|
major
|
yat 0.2
|
gslapi
|
#57 |
implement Naive Baysian Classifier
|
Peter
|
request
|
major
|
yat 0.3 (Public release)
|
classifier
|
#59 |
NCC should accept external quality weights
|
Markus Ringnér
|
enhancement
|
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
|
#62 |
add operator[] gslapi::vector
|
Jari Häkkinen
|
request
|
major
|
yat 0.2
|
gslapi
|
#63 |
remove constructor gslapi::vector(DataLookup1D&)
|
Jari Häkkinen
|
defect
|
major
|
yat 0.3 (Public release)
|
gslapi
|
#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
|
#66 |
Add GaussianKernelFunction_test
|
Peter
|
request
|
major
|
yat 0.3 (Public release)
|
test
|
#68 |
Make weighted statistics document more visible from the trac or docs pages.
|
Peter
|
defect
|
major
|
yat 0.2
|
documentation
|
#70 |
Document ConsensusInputRanker
|
Peter
|
defect
|
major
|
|
classifier
|
#73 |
Document KernelLookup
|
Peter
|
defect
|
major
|
|
documentation
|
#74 |
Document MatrixLookup
|
Peter
|
defect
|
major
|
|
documentation
|
#75 |
Doxygen document SupervisedClassifier
|
Peter
|
request
|
major
|
yat 0.4
|
documentation
|
#76 |
gslapi::matrix
|
Jari Häkkinen
|
enhancement
|
major
|
yat 0.2
|
gslapi
|
#77 |
Doxygen document linear regression
|
Peter
|
request
|
major
|
yat 0.2
|
documentation
|
#78 |
Document MultiDimensional
|
Peter
|
request
|
major
|
yat 0.2
|
documentation
|
#79 |
Document statistics::tScore::score()
|
Peter
|
defect
|
major
|
|
documentation
|
#80 |
Change implementation of utility::FileIO::file_exists()
|
Jari Häkkinen
|
defect
|
major
|
yat 0.2
|
utility
|
#81 |
Make the regression classes uniform
|
Peter
|
request
|
major
|
yat 0.2
|
regression
|
#88 |
Add SAM Score class
|
Peter
|
request
|
major
|
yat 0.2
|
statistics
|
#89 |
document DataLookup2D
|
Peter
|
request
|
major
|
|
classifier
|
#95 |
ownership in Lookups is not optimal
|
Peter
|
enhancement
|
major
|
yat 0.3 (Public release)
|
classifier
|
#99 |
document CommandLine class
|
Peter
|
request
|
major
|
|
documentation
|
#100 |
gslapi::matrix::nan()
|
Markus Ringnér
|
request
|
major
|
yat 0.2
|
classifier
|