

@2960

9 years 
Peter 
merge patch release 0.10.1 into trunk



@2951

9 years 
Peter 
add deps for lazycheck



@2950

9 years 
Peter 
test for yat.pc. closes #734



@2946

9 years 
Peter 
avoid duplication



@2943

9 years 
Peter 
merge release 0.10 into trunk



@2932

9 years 
Peter 
remove misleading comment as these files are no longer direct input to …



@2927

9 years 
Peter 
remove old core dumps in test prologue (to avoid accumulation of …



@2919

9 years 
Peter 
update copyright years



@2908

9 years 
Peter 
copy tests from http://dev.thep.lu.se/svndigest code. refs #717



@2902

9 years 
Peter 
test for bam_pair_analyse. refs #729



@2895

9 years 
Peter 
add two tests for bam functionality



@2894

9 years 
Peter 
fix VPATH build issues



@2893

9 years 
Peter 
run (also C++) tests in specific test dir so test can create temporary …



@2891

9 years 
Peter 
check for samtools in configure; create bam file in 'make check' if we …



@2889

9 years 
Peter 
Binomial distribution. fixes #730



@2888

9 years 
Peter 
add example SAM file. refs #729



@2881

9 years 
Peter 
Define PP variables in config.h rather than in CPPFLAGS. Include …



@2879

9 years 
Peter 
split function that splits on several chars



@2867

9 years 
Peter 
A log2 function similar to std::log10.



@2865

9 years 
Peter 
rename record file because file named 'conftest*' are deleted inside …



@2858

9 years 
Peter 
closes #725



@2857

9 years 
Peter 
closes #726



@2853

9 years 
Peter 
merge patch release 0.9.1 into trunk



@2837

9 years 
Peter 
avoid ancient inclusion guards around '#include <config.h>'



@2817

9 years 
Peter 
update copyright years



@2815

9 years 
Peter 
closes #706. Implement a generalization of SmithWaternan? and …



@2809

9 years 
Peter 
closes #705. Create a common interface class for average classes …



@2806

9 years 
Peter 
avoid spurious error on OSX Tiger on which 'rm foo/.*' tries to remove …



@2805

9 years 
Peter 
avoid autoconf warnings in tests and do not delete testdir in test …



@2803

9 years 
Peter 
fixed spurious test failures as well as a bug in operator+=. refs #705



@2802

9 years 
Peter 
adding documentation and tests. Remove private member count_ (not …



@2799

9 years 
Peter 
first version of class Averager4. refs #705



@2798

9 years 
Peter 
merge release 0.8.2 into trunk



@2787

9 years 
Peter 
update coyright years



@2784

9 years 
Jari Häkkinen 
Resolving precision issues on my macbook pro.



@2769

9 years 
Peter 
refs #568. test using multithreaded RNG



@2762

9 years 
Peter 
set dependency for doxygen_test.sh



@2761

9 years 
Peter 
refs #494. fix approx pvalue with ties



@2760

9 years 
Peter 
allow copy and assignment. refs #494



@2759

9 years 
Peter 
add test for exact pvalue with ties. refs #494



@2758

9 years 
Peter 
test for approx pvalue with ties refs #494



@2757

9 years 
Peter 
change definition of tau in presence of ties. refs #494



@2754

9 years 
Peter 
avoid suggesting bug reports to trac, prefer single quote (rather than …



@2749

9 years 
Peter 
add small convenience Makefiles in subdirs. closes #703



@2746

9 years 
Peter 
reflect nonrecursive Makefile



@2744

9 years 
Peter 
conform rules make rules for yathello.1.0.tar.gz, yatconfig and …



@2742

9 years 
Peter 
minor speedup in DNA::complement



@2739

9 years 
Peter 
refs #703 using a nonrecursive Makefile. Old Makefile.am are kept but …



@2736

9 years 
Peter 
fixes #702



@2735

9 years 
Peter 
fix matrix test and add new function trace



@2728

10 years 
Peter 
typo



@2724

10 years 
Peter 
set svncopyright:ignore property



@2721

10 years 
Peter 
add a remove function in KolmogorovSmirnov?



@2720

10 years 
Peter 
ROC: remove a data value. closes #688



@2718

10 years 
Peter 
implement ROC pvalue handling weights and ties. closes #211



@2714

10 years 
Peter 
loosen test stringency to avoid spurious failure on RHEL6 with atlas



@2712

10 years 
Peter 
correct test. refs #211



@2709

10 years 
Peter 
refs #211. Changed how number of samples, n, is calculated in large …



@2708

10 years 
Peter 
tests for weighted ROC pvalue. refs #211



@2707

10 years 
Peter 
remove trailing WS and fix indentation



@2706

10 years 
Peter 
avoid missing regression. remove trailing WS



@2705

10 years 
Peter 
make sure test catches possible regression (refs #508)



@2703

10 years 
Peter 
merge release 0.8.1 into trunk



@2698

10 years 
Peter 
remove trailing whitespace



@2694

10 years 
Peter 
extend test to check that cache is caching. closes #496



@2692

10 years 
Peter 
remove trailing whitespace



@2680

10 years 
Peter 
fixes #699



@2679

10 years 
Peter 
extend test. refs #699



@2673

10 years 
Peter 
merge release 0.8 into trunk



@2662

10 years 
Peter 
implementing score and pvalue for Kendall's tau (refs #494).



@2650

10 years 
Peter 
more tests for Kendall. refs #494



@2649

10 years 
Peter 
skeleton for class Kendall (refs #494).



@2646

10 years 
Peter 
refs #493. test for ties



@2645

10 years 
Peter 
implement first version exact pvalue. refs #493



@2643

10 years 
Peter 
remove spearman.test from XFAIL



@2642

10 years 
Peter 
refs #493. Implement pvalue. Exact versions does not handle ties.



@2640

10 years 
Peter 
refs #493. Not sure how to handle weight so removed weighted …



@2638

10 years 
Peter 
refs #493. implemented Spearman::score



@2636

10 years 
Peter 
add missing file. refs #493



@2634

10 years 
Peter 
skeleton for Spearman correlation class. refs #493



@2622

10 years 
Peter 
prefer ending tests with exit_success



@2613

10 years 
Peter 
update copyright years



@2611

10 years 
Peter 
fixes #680 and #679



@2608

10 years 
Peter 
delete trailing newlines



@2606

10 years 
Peter 
remove confusing variable, move_ifchange, never used



@2605

10 years 
Peter 
remove moveifchange and use the one generated at autoconf time



@2601

10 years 
Peter 
merge release 0.7.3 into trunk. A couple of conflict and needed fix …



@2595

10 years 
Peter 
fixes #678. ROC p_value



@2593

10 years 
Peter 
add test for #678



@2585

10 years 
Peter 
handle ties in exact calculation of ROC pvalue. fixes #144



@2584

10 years 
Peter 
prefer alphabetical order



@2583

10 years 
Peter 
Fix test yat_revision_header_test.sh so it works also when srcdir is …



@2558

10 years 
Peter 
refs #671. Follow Knuth's algorithm to calculate average and variance …



@2556

10 years 
Peter 
ROC: implement correction for ties in large sample approximation o …



@2552

10 years 
Peter 
YAT_REVISION_HEADER: avoid updating timestamp of file.h.in if not …



@2551

10 years 
Peter 
refs #144. Fix ROC::area for the tied case



@2550

10 years 
Peter 
use macros EXIT_FAILURE and EXIT_SUCCESS



@2549

10 years 
Peter 
ROC: adding a test for ties case. refs #144



@2546

10 years 
Peter 
correct typo



@2545

10 years 
Peter 
correct dependencies


