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Diff Rev Age Author Log Message
(edit) @3432   6 years Peter fix compilation error when --without-htslib
(edit) @3431   6 years Peter revert r3426 and some cosmetic changes (refs #794)
(edit) @3430   6 years Peter fix wiki formatting
(edit) @3429   6 years Peter mention in NEWS that YAT_HAVE_LIBBAM and YAT_BAM_HEADER are not …
(edit) @3428   6 years Peter avoid referring to deprecated option
(edit) @3427   6 years Peter avoid long line, and fix typo
(edit) @3426   6 years Peter #define YAT_HAVE_LIBBAM when linking against libbam. refs #794
(edit) @3422   6 years Peter mention how to avoid compiler warning from htslib
(edit) @3421   6 years Peter fix typo (causing compilation error)
(edit) @3420   6 years Peter Fix PP error when compiling against boost 1.53 as …
(edit) @3418   7 years Peter New stable branch 0.13
(edit) @3343   7 years Peter bumping version to 0.12.3pre
(edit) @3340   7 years Peter Preparing release 0.12.2
(edit) @3339   7 years Peter Fix problem that Aligner::member_ is not cleared to 'none' before …
(edit) @3338   7 years Peter closes #819. Fixes docs.
(edit) @3321   7 years Peter fixes bug #815
(edit) @3307   7 years Peter bump version to 0.12.2pre
(edit) @3304   7 years Peter Preparing release 0.12.1
(edit) @3303   7 years Peter New macro YAT_FUNC_BAM_CALEND, which checks if function bam_calend is …
(edit) @3302   7 years Peter add test for BamRead::end(). Use samtools' bam_calend if …
(edit) @3301   7 years Peter refs #810. minor corrections
(edit) @3300   7 years Peter BAM_CBACK is not #defined in older versions of bam.h. refs #810
(edit) @3296   7 years Peter bump version to 0.12.1pre
(edit) @3293   7 years Peter update copyright years
(edit) @3292   7 years Peter Preparing release 0.12
(edit) @3291   7 years Jari Häkkinen Getting rid of clang warning 'unsequenced modification and access to …
(edit) @3284   7 years Peter fixes #804
(edit) @3275   7 years Peter revert r3271 and 3272; the change was dangerous since boost::facade …
(edit) @3272   7 years Peter record r3271 in NEWS
(edit) @3271   7 years Peter According to boost docs [1] iterators' value type cannot be const. For …
(edit) @3265   7 years Peter Try to get rid of clang warning: 'unsequenced modification and access …
(edit) @3264   7 years Peter avoid clang compiler warning: 'equality comparison result unused …
(edit) @3263   7 years Peter typo in PP guard (caught by clang)
(edit) @3262   7 years Peter boost::Convertible<X, Y> with X being a reference causes compiler …
(edit) @3261   7 years Peter newer versions of doxygen (1.8.7) complain when using same label in …
(edit) @3260   7 years Jari Häkkinen Adding #includes needed on Mac OSX 10.9 Mavericks
(edit) @3235   8 years Peter fix some copy n paste in previous revision, and removed some includes …
(edit) @3234   8 years Peter fixes #797
(edit) @3233   8 years Peter refs #797. Fix the bug in 0.11.x
(edit) @3222   8 years Peter prefer tp declare functions alphabetically. Implement …
(edit) @3221   8 years Peter deprecate BamRead::cigar(vector<uint32_t>) and provide a new function …
(edit) @3218   8 years Peter New stable branch 0.12
(edit) @3189   8 years Peter bumping version to 0.11.3pre
(edit) @3186   8 years Peter mention yat-0.11.2 corresponds to 8:2:0
(edit) @3185   8 years Peter update copyright years
(edit) @3184   8 years Peter Preparing release 0.11.2
(edit) @3182   8 years Peter update copyright years
(edit) @3181   8 years Peter fixes #788
(edit) @3164   8 years Peter NEWS: record fix in r3163
(edit) @3163   8 years Peter samwrite returns -1 if file is closed, so correct code to detect when …
(edit) @3161   8 years Peter fix docs so doxygen can parse correctly
(edit) @3159   8 years Peter fixed docs typo
(edit) @3158   8 years Peter improve docs for BamHeader?
(edit) @3156   8 years Peter update copyright years
(edit) @3155   8 years Peter fixes #777. Make doxygen ignore internal stuff
(edit) @3146   8 years Peter fixed docs
(edit) @3145   8 years Peter bumping version to 0.11.2pre
(edit) @3142   8 years Peter prepare release
(edit) @3141   8 years Peter record bug #776 in NEWS
(edit) @3140   8 years Peter fixes #776 a bug in function BamHeader::tid
(edit) @3132   8 years Peter move ReleaseProcedure to file README.developer
(edit) @3131   8 years Peter bump version to 0.11.1pre
(edit) @3128   8 years Peter prepare 0.11 release
(edit) @3127   8 years Peter update copyright years
(edit) @3126   8 years Jari Häkkinen Relaxing requirement on autoconf, tests passes with 2.63
(edit) @3125   8 years Peter try <bam.h> before <bam/bam.h>
(edit) @3124   8 years Peter avoid using m4_map_args_w, which doesn't work with autoconf 2.63
(edit) @3123   8 years Peter turn off test that linking against a static lib when creating a …
(edit) @3122   8 years Peter define libdir directly rather than via prefix
(edit) @3121   8 years Peter always abort if command fails
(edit) @3120   8 years Jari Häkkinen Fixing disambiguity of -i option om mac (on mac a of another option …
(edit) @3119   8 years Jari Häkkinen Removing html code disrupting crosslink with doxygen 1.8.5 on my mac.
(edit) @3116   8 years Peter New stable branch for 0.11.x series
(edit) @3097   8 years Peter bumping version to 0.10.4pre
(edit) @3095   8 years Peter Prepare release 0.10.3
(edit) @3094   8 years Peter update copyright years
(edit) @3093   8 years Peter implement replace(3), which fixes #768
(edit) @3022   9 years Peter avoid running mc-local targets in parallel (as they conflict with each …
(edit) @3021   9 years Peter fix script to do what's intended
(edit) @3020   9 years Peter fix typo
(edit) @3019   9 years Peter bumping version to 0.10.3pre
(edit) @3016   9 years Peter avoid make warnings in parallel build
(edit) @3015   9 years Peter prefer April not Apr in NEWS
(edit) @3014   9 years Peter update copyright years
(edit) @3013   9 years Peter preparing 0.10.2 release
(edit) @3012   9 years Peter typo
(edit) @3011   9 years Peter leftover from prev commit
(edit) @3010   9 years Peter move components in tag_and_release to make target so Make variables …
(edit) @3009   9 years Peter soften installcheck on html docs
(edit) @3008   9 years Peter avoid spurious test error: use yat-config --ldflags when linking. refs #745
(edit) @3003   9 years Peter prefer flat_namespace on darwin (OSX). refs #745
(edit) @3000   9 years Peter fixes bug in KolmogorovSmirnov::remove. closes #753.
(edit) @2997   9 years Peter improve error message
(edit) @2996   9 years Peter docs typo
(edit) @2991   9 years Peter avoid path problem when MKDIR_P is defined as install-sh
(edit) @2979   9 years Peter extending test for BamRead::cigar
(edit) @2977   9 years Peter fixes #749. turn off assertions (default).
(edit) @2974   9 years Jari Häkkinen Addresses #747
(edit) @2973   9 years Jari Häkkinen Adresses #747
(edit) @2972   9 years Peter refs #745. Implement a workaround when bam_nt16_rev_table is not …
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