|
|
|
@3321
|
9 years |
Peter |
fixes bug #815
|
|
|
|
@3307
|
9 years |
Peter |
bump version to 0.12.2pre
|
|
|
|
@3304
|
9 years |
Peter |
Preparing release 0.12.1
|
|
|
|
@3303
|
9 years |
Peter |
New macro YAT_FUNC_BAM_CALEND, which checks if function bam_calend is …
|
|
|
|
@3302
|
9 years |
Peter |
add test for BamRead::end(). Use samtools' bam_calend if …
|
|
|
|
@3301
|
9 years |
Peter |
refs #810. minor corrections
|
|
|
|
@3300
|
9 years |
Peter |
BAM_CBACK is not #defined in older versions of bam.h. refs #810
|
|
|
|
@3296
|
9 years |
Peter |
bump version to 0.12.1pre
|
|
|
|
@3293
|
9 years |
Peter |
update copyright years
|
|
|
|
@3292
|
9 years |
Peter |
Preparing release 0.12
|
|
|
|
@3291
|
9 years |
Jari Häkkinen |
Getting rid of clang warning 'unsequenced modification and access to …
|
|
|
|
@3284
|
9 years |
Peter |
fixes #804
|
|
|
|
@3275
|
9 years |
Peter |
revert r3271 and 3272; the change was dangerous since boost::facade …
|
|
|
|
@3272
|
9 years |
Peter |
record r3271 in NEWS
|
|
|
|
@3271
|
9 years |
Peter |
According to boost docs [1] iterators' value type cannot be const. For …
|
|
|
|
@3265
|
9 years |
Peter |
Try to get rid of clang warning:
'unsequenced modification and access …
|
|
|
|
@3264
|
9 years |
Peter |
avoid clang compiler warning: 'equality comparison result unused …
|
|
|
|
@3263
|
9 years |
Peter |
typo in PP guard (caught by clang)
|
|
|
|
@3262
|
9 years |
Peter |
boost::Convertible<X, Y> with X being a reference causes compiler …
|
|
|
|
@3261
|
9 years |
Peter |
newer versions of doxygen (1.8.7) complain when using same label in …
|
|
|
|
@3260
|
9 years |
Jari Häkkinen |
Adding #includes needed on Mac OSX 10.9 Mavericks
|
|
|
|
@3235
|
9 years |
Peter |
fix some copy n paste in previous revision, and removed some includes …
|
|
|
|
@3234
|
9 years |
Peter |
fixes #797
|
|
|
|
@3233
|
9 years |
Peter |
refs #797. Fix the bug in 0.11.x
|
|
|
|
@3222
|
9 years |
Peter |
prefer tp declare functions alphabetically. Implement …
|
|
|
|
@3221
|
9 years |
Peter |
deprecate BamRead::cigar(vector<uint32_t>) and provide a new function …
|
|
|
|
@3218
|
9 years |
Peter |
New stable branch 0.12
|
|
|
|
@3189
|
9 years |
Peter |
bumping version to 0.11.3pre
|
|
|
|
@3186
|
9 years |
Peter |
mention yat-0.11.2 corresponds to 8:2:0
|
|
|
|
@3185
|
9 years |
Peter |
update copyright years
|
|
|
|
@3184
|
9 years |
Peter |
Preparing release 0.11.2
|
|
|
|
@3182
|
9 years |
Peter |
update copyright years
|
|
|
|
@3181
|
9 years |
Peter |
fixes #788
|
|
|
|
@3164
|
9 years |
Peter |
NEWS: record fix in r3163
|
|
|
|
@3163
|
9 years |
Peter |
samwrite returns -1 if file is closed, so correct code to detect when …
|
|
|
|
@3161
|
9 years |
Peter |
fix docs so doxygen can parse correctly
|
|
|
|
@3159
|
9 years |
Peter |
fixed docs typo
|
|
|
|
@3158
|
9 years |
Peter |
improve docs for BamHeader?
|
|
|
|
@3156
|
9 years |
Peter |
update copyright years
|
|
|
|
@3155
|
9 years |
Peter |
fixes #777. Make doxygen ignore internal stuff
|
|
|
|
@3146
|
9 years |
Peter |
fixed docs
|
|
|
|
@3145
|
9 years |
Peter |
bumping version to 0.11.2pre
|
|
|
|
@3142
|
9 years |
Peter |
prepare release
|
|
|
|
@3141
|
9 years |
Peter |
record bug #776 in NEWS
|
|
|
|
@3140
|
9 years |
Peter |
fixes #776 a bug in function BamHeader::tid
|
|
|
|
@3132
|
10 years |
Peter |
move ReleaseProcedure to file README.developer
|
|
|
|
@3131
|
10 years |
Peter |
bump version to 0.11.1pre
|
|
|
|
@3128
|
10 years |
Peter |
prepare 0.11 release
|
|
|
|
@3127
|
10 years |
Peter |
update copyright years
|
|
|
|
@3126
|
10 years |
Jari Häkkinen |
Relaxing requirement on autoconf, tests passes with 2.63
|
|
|
|
@3125
|
10 years |
Peter |
try <bam.h> before <bam/bam.h>
|
|
|
|
@3124
|
10 years |
Peter |
avoid using m4_map_args_w, which doesn't work with autoconf 2.63
|
|
|
|
@3123
|
10 years |
Peter |
turn off test that linking against a static lib when creating a …
|
|
|
|
@3122
|
10 years |
Peter |
define libdir directly rather than via prefix
|
|
|
|
@3121
|
10 years |
Peter |
always abort if command fails
|
|
|
|
@3120
|
10 years |
Jari Häkkinen |
Fixing disambiguity of -i option om mac (on mac a of another option …
|
|
|
|
@3119
|
10 years |
Jari Häkkinen |
Removing html code disrupting crosslink with doxygen 1.8.5 on my mac.
|
|
|
|
@3116
|
10 years |
Peter |
New stable branch for 0.11.x series
|
|
|
|
@3097
|
10 years |
Peter |
bumping version to 0.10.4pre
|
|
|
|
@3095
|
10 years |
Peter |
Prepare release 0.10.3
|
|
|
|
@3094
|
10 years |
Peter |
update copyright years
|
|
|
|
@3093
|
10 years |
Peter |
implement replace(3), which fixes #768
|
|
|
|
@3022
|
10 years |
Peter |
avoid running mc-local targets in parallel (as they conflict with each …
|
|
|
|
@3021
|
10 years |
Peter |
fix script to do what's intended
|
|
|
|
@3020
|
10 years |
Peter |
fix typo
|
|
|
|
@3019
|
10 years |
Peter |
bumping version to 0.10.3pre
|
|
|
|
@3016
|
10 years |
Peter |
avoid make warnings in parallel build
|
|
|
|
@3015
|
10 years |
Peter |
prefer April not Apr in NEWS
|
|
|
|
@3014
|
10 years |
Peter |
update copyright years
|
|
|
|
@3013
|
10 years |
Peter |
preparing 0.10.2 release
|
|
|
|
@3012
|
10 years |
Peter |
typo
|
|
|
|
@3011
|
10 years |
Peter |
leftover from prev commit
|
|
|
|
@3010
|
10 years |
Peter |
move components in tag_and_release to make target so Make variables …
|
|
|
|
@3009
|
10 years |
Peter |
soften installcheck on html docs
|
|
|
|
@3008
|
10 years |
Peter |
avoid spurious test error: use yat-config --ldflags when linking. refs #745
|
|
|
|
@3003
|
10 years |
Peter |
prefer flat_namespace on darwin (OSX). refs #745
|
|
|
|
@3000
|
10 years |
Peter |
fixes bug in KolmogorovSmirnov::remove. closes #753.
|
|
|
|
@2997
|
10 years |
Peter |
improve error message
|
|
|
|
@2996
|
10 years |
Peter |
docs typo
|
|
|
|
@2991
|
10 years |
Peter |
avoid path problem when MKDIR_P is defined as install-sh
|
|
|
|
@2979
|
10 years |
Peter |
extending test for BamRead::cigar
|
|
|
|
@2977
|
10 years |
Peter |
fixes #749. turn off assertions (default).
|
|
|
|
@2974
|
10 years |
Jari Häkkinen |
Addresses #747
|
|
|
|
@2973
|
10 years |
Jari Häkkinen |
Adresses #747
|
|
|
|
@2972
|
10 years |
Peter |
refs #745. Implement a workaround when bam_nt16_rev_table is not …
|
|
|
|
@2971
|
10 years |
Peter |
make docs more vaguer on behaviour of bam iterators working on same …
|
|
|
|
@2970
|
10 years |
Peter |
surround test1 call with #ifdef HAVE_LIBBAM since test1 is not …
|
|
|
|
@2969
|
10 years |
Peter |
update copyright years
|
|
|
|
@2968
|
10 years |
Peter |
add doxygen relates tag
|
|
|
|
@2967
|
10 years |
Jari Häkkinen |
Includes needed in openSUSE 12.2
|
|
|
|
@2965
|
10 years |
Peter |
add doxygen tag relates for BamRead?
|
|
|
|
@2962
|
10 years |
Peter |
fixes #743
|
|
|
|
@2961
|
10 years |
Peter |
post release admin
|
|
|
|
@2958
|
10 years |
Peter |
prepare release 0.10.1
|
|
|
|
@2957
|
10 years |
Peter |
update copyright years
|
|
|
|
@2956
|
10 years |
Peter |
update NEWS
|
|
|
|
@2955
|
10 years |
Peter |
refs #736. Fix creation of yat.pc
|
|
|
|
@2954
|
10 years |
Peter |
fixes #733 and #736. Do not link -lbam into libyat.la, but do mention …
|
|
|
|
@2953
|
10 years |
Peter |
implement BamHeader::target_length(). fixes #740
|
|
|
|
@2947
|
10 years |
Peter |
#define/#undef HAVE_SAMTOOL_BAM_H in config_public.h.in and remove …
|
|
|
|
