Timeline



Feb 5, 2013:

1:09 AM Changeset [2984] by Peter
move newlines to make code more eye friendly

Feb 4, 2013:

2:10 PM Ticket #751 (OutBamFile::write() ignores return value from samwrite) closed by Peter
fixed: (In [2983]) fixes #751. throw if OutBamFile::write fails
2:10 PM Changeset [2983] by Peter
fixes #751. throw if OutBamFile::write fails
1:51 PM Changeset [2982] by Peter
fix typo introduced in r2980
12:24 PM Ticket #748 (SKIP yat_pc_test.sh when --without-samtools) closed by Peter
fixed: (In [2981]) Skip yat_pc_test.sh when -without-samtools. fixes #748
12:24 PM Changeset [2981] by Peter
Skip yat_pc_test.sh when -without-samtools. fixes #748
8:36 AM Changeset [2980] by Peter
add syntax-check rule (included in maintainer-check), add two missing …

Jan 31, 2013:

8:15 AM Changeset [2979] by Peter
extending test for BamRead::cigar
6:59 AM Ticket #751 (OutBamFile::write() ignores return value from samwrite) created by Peter
Function should check return value and throw if error is detected.
4:16 AM Ticket #750 (update svndigest:ignore properties) created by Peter
The code statistics is now generated with svndigest 0.10, which …

Jan 30, 2013:

2:31 AM Changeset [2978] by Peter
fix docs typos
1:50 AM Ticket #749 (asserts are turned on (default)) closed by Peter
fixed: (In [2977]) fixes #749. turn off assertions (default).
1:50 AM Changeset [2977] by Peter
fixes #749. turn off assertions (default).
1:47 AM Ticket #749 (asserts are turned on (default)) created by Peter
The default behaviour has previously been that assertions are turned …

Jan 29, 2013:

2:16 PM Ticket #748 (SKIP yat_pc_test.sh when --without-samtools) created by Peter
When configured --without-samtools, test yat_pc_test.sh should be …
2:11 PM Changeset [2976] by Peter
use --static switch to avoid failure on OSX4

Jan 28, 2013:

11:40 PM Ticket #745 (Symbol not found: _bam_nt16_rev_table) reopened by Jari Häkkinen
I confused my different test machines and have to reopen this ticket. …
9:57 PM Ticket #747 (doxygen complains about yat's doxygen config file) closed by Jari Häkkinen
fixed: (In [2975]) Fixes #747
9:57 PM Changeset [2975] by Jari Häkkinen
Fixes #747
9:57 PM Changeset [2974] by Jari Häkkinen
Addresses #747
9:54 PM Changeset [2973] by Jari Häkkinen
Adresses #747
9:51 PM Ticket #747 (doxygen complains about yat's doxygen config file) created by Jari Häkkinen
Doxygen output: warning: Tag `HTML_ALIGN_MEMBERS' at line 490 of file …
12:09 AM Ticket #745 (Symbol not found: _bam_nt16_rev_table) closed by Peter
fixed

Jan 26, 2013:

7:53 AM Changeset [2972] by Peter
refs #745. Implement a workaround when bam_nt16_rev_table is not …

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
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