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samtools.git
2010-07-12
Heng Li
fixed a bug in sorting when output to stdout (by Peter...
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2010-07-09
Heng Li
change the command line option of pileup
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2010-07-09
Heng Li
make pileup work with CIGAR with I/D at the beginning...
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2010-07-09
Heng Li
* make tview more friendly
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2010-07-08
Heng Li
* samtools-0.1.7-r607
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2010-07-08
Heng Li
removed a debugging example
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2010-07-08
Heng Li
* samtools-.1.7-18 (r605)
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2010-07-02
Heng Li
fixed a minor bug in idxstats
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2010-06-16
Heng Li
fixed a minor bug in indexing
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2010-06-15
Heng Li
change printf() to puts in exporting
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2010-06-14
Heng Li
minor fix. No actual effect.
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2010-06-14
Heng Li
added Makefile targets to compile shared/dynamic library
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2010-06-13
Heng Li
* samtools-0.1.7-17 (r596)
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2010-06-13
Heng Li
* samtools-0.1.7-16 (r595)
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2010-06-13
Heng Li
fixed a bug for unmapped sequences in indexing
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2010-06-12
Heng Li
rename iterf as iter
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2010-06-12
Heng Li
* samtools-0.1.7-15 (r592)
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2010-06-12
Heng Li
* samtools-0.1.7-14 (r591)
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2010-06-12
Heng Li
* samtools-0.1.7-13 (r590)
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2010-06-12
Heng Li
* samtools-0.1.7-12 (r589)
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2010-06-11
Heng Li
* samtools-0.1.7-11 (r588)
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2010-06-11
Heng Li
* samtools-0.1.7-10 (r587)
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2010-06-11
Heng Li
* samtools-0.1.7-9 (r586)
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2010-06-11
Heng Li
* samtools-0.1.7-8 (r585)
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2010-06-11
Heng Li
* samtools-0.1.7-7 (r584)
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2010-06-11
Petr Danecek
Initial release on behalf of Aylwyn Scally
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2010-05-07
Petr Danecek
Added a note about the indels coordinates
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2010-04-23
Petr Danecek
Added the possibility to print or not to print the...
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2010-04-15
Petr Danecek
More descriptive message for space separated tags
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2010-04-14
Petr Danecek
Speedup with -i, no need to query the reference all...
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2010-03-15
Petr Danecek
Fixed the order of sequences in the header
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2010-03-04
Petr Danecek
Added possibility to select indels only and fixed a...
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2010-02-27
On behalf of...
Improve the invalid 'BAM\1' magic number error message...
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2010-02-26
Petr Danecek
Improved efficiency of header parsing
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2010-02-24
Heng Li
Updated export2sam.pl by Chris Saunders from Illumina.
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2010-02-17
Petr Danecek
Fixed filtering of SNPs near indels. Added min indel...
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2010-02-12
Petr Danecek
Print an error for pileups in simple format
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2010-02-11
Heng Li
added a hidden option in pileup to output the base...
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2010-02-09
Petr Danecek
Added possibility to specify a custom column title...
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2010-02-09
Petr Danecek
Added the -d option to limit maximum depth for indels.
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2010-02-03
Petr Danecek
Added VCF header
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2010-02-01
Heng Li
* samtools-0.1.7-6
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2010-01-11
On behalf of...
Put the right filename in the error message.
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2009-12-14
Heng Li
* samtools-0.1.7-5 (r528)
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2009-12-11
Petr Danecek
Fixed a bug in knet_seek
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2009-12-11
Petr Danecek
Small fix in VCF format: dot for the empty INFO field
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2009-12-11
Petr Danecek
Allow tabs in the CO header field
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2009-12-10
On behalf of...
Depend on libbam.a rather than the phony target, so...
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2009-12-10
On behalf of...
Fix a bug in compiling bgzip: this also needs knetfile...
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2009-12-01
Heng Li
* samtools-0.1.7-4 (r522)
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2009-12-01
Heng Li
* samtools-0.1.7-3 (r521)
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2009-12-01
Heng Li
* samtools-0.1.7-2 (r520)
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2009-11-30
On behalf of...
Put libraries at the end, so they can resolve reference...
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2009-11-30
On behalf of...
Also clean *.exe (for Cygwin users using this makefile).
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2009-11-30
On behalf of...
Index files should be opened in binary mode, not text...
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2009-11-27
Heng Li
another example program
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2009-11-27
Heng Li
* samtools-0.1.7-1 (r515)
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2009-11-24
On behalf of...
Format 'c'-encoded auxiliary fields correctly, as ...
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2009-11-16
Heng Li
Update Makefile.mingw for the same reason
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2009-11-16
Heng Li
Fixed a bug in compiling razip
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2009-11-10
Heng Li
Release samtools-0.1.7 (r510)
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2009-11-06
Heng Li
* samtools-0.1.6-22 (r509)
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2009-11-06
Heng Li
* samtools-0.1.6-21 (r508)
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2009-10-26
Heng Li
* samtools-0.1.6-19 (r494)
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2009-10-26
Heng Li
* samtools-0.1.6-18 (r493)
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2009-10-24
Petr Danecek
Added sam_header_line_free call for sam_header_parse2
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2009-10-24
Heng Li
* BUGGY VERSION
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2009-10-24
Heng Li
* BUGGY VERSION
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2009-10-24
Heng Li
* BUGGY VERSION. Please NOT use it.
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2009-10-24
Heng Li
* This revision is SERIOUSLY BUGGY. Please NOT use it.
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2009-10-23
Petr Danecek
Now possible to merge multiple HeaderDict dictionaries
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2009-10-22
Petr Danecek
(no commit message)
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2009-10-22
Petr Danecek
(no commit message)
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2009-10-19
Heng Li
* samtools-0.1.6-17 (r484)
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2009-10-19
Heng Li
* samtools-0.1.6-16 (r483)
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2009-10-19
Heng Li
* samtools-0.1.6-15 (r482)
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2009-10-18
Heng Li
* samtools-0.1.6-14 (r480)
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2009-10-18
Heng Li
added a small unitity to parse SRA XML files
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2009-10-18
Heng Li
* samtools-0.1.6-13 (r479)
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2009-10-14
Heng Li
* samtools-0.1.6-12 (r478)
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2009-10-10
Heng Li
* samtools-0.1.6-11 (r477)
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2009-10-09
Petr Danecek
Added the sam2vcf.pl script.
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2009-10-08
Heng Li
Unfinished modification. Please do not use this revision...
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2009-10-08
Petr Danecek
Removed the offending knet_seek message.
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2009-10-06
Petr Danecek
Bug fix - faidx on RAZF compressed files now working.
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2009-10-02
Heng Li
Clarify the meaning of a region like "chr2:1,000,000".
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2009-10-02
Heng Li
Fixed minor bugs in novo2sam.pl (on behalf of Ken Chen...
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2009-09-29
Heng Li
* samtools-0.1.6-9 (r470)
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2009-09-29
Heng Li
* samtools-0.1.6-9 (r469)
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2009-09-28
Heng Li
* samtools-0.1.6-7 (r468)
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2009-09-28
Petr Danecek
Changed the mode for newly created files to 0666. This...
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2009-09-24
Heng Li
* samtools-0.1.6-6 (r466)
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2009-09-23
On behalf of...
Suppress bgzf_check_EOF() messages when reading from...
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2009-09-16
Petr Danecek
A bug fix, "samtools view" is now working again.
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2009-09-16
Heng Li
* samtools-0.1.6-5 (r462)
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2009-09-09
Heng Li
fixed a formatting issue
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2009-09-08
Heng Li
* samtools-0.1.6-4 (r459)
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2009-09-07
Heng Li
* samtools-0.1.6-2 (r458)
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2009-09-05
Heng Li
* samtools-0.1.6-2 (r457)
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2009-09-04
On behalf of...
Return NULL from _razf_open() (and hence razf_open...
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