Timeline



Jan 25, 2013:

5:39 AM Ticket #746 (non-const access to data in BamRead) created by Peter
I want to modify my bam reads. Everything in core is modifiable via …

Jan 24, 2013:

1:46 PM Changeset [2971] by Peter
make docs more vaguer on behaviour of bam iterators working on same …
1:44 PM Ticket #744 (documentation claims BamReadIterators are not independent) closed by Peter
invalid
12:35 PM Changeset [2970] by Peter
surround test1 call with #ifdef HAVE_LIBBAM since test1 is not …
12:59 AM Changeset [2969] by Peter
update copyright years
12:55 AM Changeset [2968] by Peter
add doxygen relates tag
12:41 AM Ticket #745 (Symbol not found: _bam_nt16_rev_table) created by Peter
Ideally we should use that table, but when not available (check at …

Jan 23, 2013:

10:57 PM Changeset [2967] by Jari Häkkinen
Includes needed in openSUSE 12.2
10:42 PM Changeset [2966] by Jari Häkkinen
Includes needed in openSUSE 12.2
5:58 AM Changeset [2965] by Peter
add doxygen tag relates for BamRead?
2:25 AM Ticket #744 (documentation claims BamReadIterators are not independent) created by Peter
Docs for BamReadIterator claims "Also two BamReadIterator working …

Jan 22, 2013:

5:49 AM Changeset [2964] by Peter
prefer quoting like 'this' and not like `this'

Jan 21, 2013:

8:50 AM Ticket #742 (add void constructors to compose functor) closed by Peter
fixed: fixed in [2963]
8:36 AM Changeset [2963] by Peter
closes #472. Defaut constructors in compose functors.
2:38 AM Ticket #743 (BamRead::mtid is not implemented) closed by Peter
fixed: (In [2962]) fixes #743
2:38 AM Changeset [2962] by Peter
fixes #743
2:37 AM Ticket #743 (BamRead::mtid is not implemented) created by Peter
BamRead::mtid(void) is not implemented. Workaround is to use to use …

Jan 18, 2013:

3:02 AM Ticket #742 (add void constructors to compose functor) created by Peter

Jan 17, 2013:

9:22 AM Changeset [2961] by Peter
post release admin
9:19 AM Changeset [2960] by Peter
merge patch release 0.10.1 into trunk
9:08 AM Milestone yat 0.10.1 completed
Bug fix release.
9:07 AM SubversionCheckout edited by Peter
release 0.10.1 (diff)
9:06 AM WikiStart edited by Peter
release 0.10.1 (diff)
9:02 AM Changeset [2959] by Peter
tagging version 0.10.1
8:31 AM Changeset [2958] by Peter
prepare release 0.10.1
7:55 AM Ticket #741 (MergeIterator) created by Peter
I need this for BamReadIterator but no reason to limit to …
2:17 AM Changeset [2957] by Peter
update copyright years
2:14 AM Changeset [2956] by Peter
update NEWS
2:00 AM Changeset [2955] by Peter
refs #736. Fix creation of yat.pc

Jan 16, 2013:

9:33 AM Tickets #733,​736 batch updated by Peter
fixed: (In [2954]) fixes #733 and #736. Do not link -lbam into libyat.la, but …
9:33 AM Changeset [2954] by Peter
fixes #733 and #736. Do not link -lbam into libyat.la, but do mention …
8:39 AM Ticket #740 (BamHeader::target_length(size_t) not implemented) closed by Peter
fixed: (In [2953]) implement BamHeader::target_length(). fixes #740
8:39 AM Changeset [2953] by Peter
implement BamHeader::target_length(). fixes #740
1:07 AM Ticket #740 (BamHeader::target_length(size_t) not implemented) created by Peter
12:53 AM Ticket #739 (bam_parse_region with yat interface) created by Peter
I'm using yat's interface against samtools and wanted to use …

Jan 15, 2013:

9:15 AM Ticket #738 (Functor to filter BamReads) created by Peter
Quite often one want to iterate through a bam file and ignore certain …
5:50 AM Ticket #737 (test [in configure] whether libs can be used to create shared libyat) created by Peter
spinn off from #733 To solve problems reported in ticket #733 we …

Jan 11, 2013:

7:01 AM Ticket #716 (look for openblas in configure) closed by Peter
fixed: (In [2952]) look for openblas. closes #716
7:01 AM Changeset [2952] by Peter
look for openblas. closes #716
2:33 AM Changeset [2951] by Peter
add deps for lazycheck
2:24 AM Ticket #734 (test yat.pc) closed by Peter
fixed: (In [2950]) test for yat.pc. closes #734
2:24 AM Changeset [2950] by Peter
test for yat.pc. closes #734

Jan 10, 2013:

9:21 AM Ticket #736 (-lbam and -lz are not mentioned in yat.pc) created by Peter
bam and z should be mentioned in Libs.private, which is only used with …
2:29 AM Changeset [2949] by Peter
comments describing defines from bam.h
2:22 AM Changeset [2948] by Peter
prefer AC_SEARCH_LIBS over AC_CHECK_LIB
2:09 AM Ticket #735 (missing HAVE_SAMTOOLS_BAM_H in config_public.h.in) closed by Peter
fixed: (In [2947]) #define/#undef HAVE_SAMTOOL_BAM_H in config_public.h.in …
2:09 AM Changeset [2947] by Peter
#define/#undef HAVE_SAMTOOL_BAM_H in config_public.h.in and remove …
2:02 AM Ticket #735 (missing HAVE_SAMTOOLS_BAM_H in config_public.h.in) created by Peter
Changeset r2928 introduced some defines in config_public.h.in that is …
12:48 AM Ticket #734 (test yat.pc) created by Peter
Usage of the yat.pc file is not tested. We should add a test that uses …

Jan 9, 2013:

10:36 AM Changeset [2946] by Peter
avoid duplication
5:58 AM Ticket #733 (build failure with static libbam) created by Peter
I get the following error message when trying to build yat […] …
4:40 AM Ticket #701 (avoid release merge conflicts) closed by Peter
wontfix: The main problem, undetected merges of PATCH_VERSION updates, was …

Jan 8, 2013:

8:05 AM Ticket #732 (use AC_CONFIG_MACRO_DIRS) created by Peter
New versions of autotools recommend using […] instead of […] and …

Jan 7, 2013:

5:30 AM Changeset [2945] by Peter
avoid warning from Automake

Jan 4, 2013:

7:40 AM Changeset [2944] by Peter
bumping version to 0.10.1pre
7:38 AM Changeset [2943] by Peter
merge release 0.10 into trunk
7:27 AM Milestone yat 0.10 completed
Introduction of some wrapper classes for …
7:27 AM SubversionCheckout edited by Peter
release 0.10 (diff)
7:24 AM WikiStart edited by Peter
release 0.10 (diff)
7:15 AM Changeset [2942] by Peter
tagging version 0.10
6:44 AM Changeset [2941] by Peter
correct typo
6:42 AM Changeset [2940] by Peter
update copyright years
6:37 AM Changeset [2939] by Peter
Prepare 0.10 release

Jan 3, 2013:

9:33 AM Ticket #731 (yat_revision_header fails with Automake 1.13) closed by Peter
fixed: (In [2938]) unset some make variables in tests. fixes #731
9:33 AM Changeset [2938] by Peter
unset some make variables in tests. fixes #731
1:48 AM Ticket #731 (yat_revision_header fails with Automake 1.13) created by Peter
Test log contains […] looks like make communicates some variable …

Jan 2, 2013:

12:09 AM Changeset [2937] by Peter
improve doc

Jan 1, 2013:

7:58 AM Changeset [2936] by Peter
avoid repeating code

Dec 31, 2012:

3:48 AM Changeset [2935] by Peter
avoid multiple calls to join_all (and underlying join) which might be …

Dec 30, 2012:

11:36 AM Changeset [2934] by Peter
check that compiled and linked versions are the same

Dec 28, 2012:

4:20 AM Changeset [2933] by Peter
avoid transfer exception between threads. Print as early as possible. …

Dec 27, 2012:

2:00 AM Changeset [2932] by Peter
remove misleading comment as these files are no longer direct input to …
1:51 AM Changeset [2931] by Peter
add test that configure --without-samtools within maintainer-check
1:50 AM Changeset [2930] by Peter
fix typo and ensure directory exists bfore creating file in it.

Dec 26, 2012:

2:32 AM Changeset [2929] by Peter
add EXIT_SKIP macro. make test compile also --without-samtools
12:20 AM Changeset [2928] by Peter
Support different styles of including bam header files: <bam.h>, …
Note: See TracTimeline for information about the timeline view.