July 25, 2017 – August 1, 2017
Overview
5 Pull requests merged by 3 people
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Merged
#960
Broke out the static variables so that they can be used separately.
Jul 31, 2017 -
Merged
#954
Updated javadocs for query method
Jul 31, 2017 -
Merged
#933
Write vcf to stdout
Jul 27, 2017 -
Merged
#937
Proposal: deprecate or remove SAMTools.java
Jul 27, 2017 -
Merged
#939
Increase test coverage for Cigar components
Jul 27, 2017
8 Pull requests proposed by 1 person
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Proposed
#947
Proposal: deprecate FixBAMFile.java
Jul 27, 2017 -
Proposed
#948
Increase coverage for SAMRecord query comparators
Jul 27, 2017 -
Proposed
#950
Remove deprecated SAMRecordUtil
Jul 27, 2017 -
Proposed
#951
Increase test coverage for SAMReadGroupRecord
Jul 27, 2017 -
Proposed
#952
Deprecate FastqRecord.toString to warn users for a future change in behaviour
Jul 27, 2017 -
Proposed
#953
Simplify BufferedLineReader by using LineNumberReader
Jul 27, 2017 -
Proposed
#956
Add support for SQ-AN in SAMSequenceDictionary
Jul 28, 2017 -
Proposed
#959
Change contract for getAnyAttribute to return null for missing values
Jul 31, 2017
5 Issues created by 3 people
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Opened
#958
getAnyAttribute returns String instead of List<Integer>
Jul 29, 2017 -
Opened
#957
Missing value in integer FORMAT field returns -1
Jul 28, 2017 -
Opened
#955
Remove SAMTools.jar after one/two releases
Jul 28, 2017 -
Opened
#949
Proposal: deprecate SQTagUtil.java
Jul 27, 2017 -
Opened
#946
Can't read or write gzipped BCFs
Jul 26, 2017
5 Unresolved conversations
Sometimes conversations happen on old items that aren’t yet closed. Here is a list of all the Issues and Pull Requests with unresolved conversations.
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21 new comments
Open
#904
Support for partial VCF writing
Jul 29, 2017 -
20 new comments
Open
#906
Fix bugs in IndexFactory and BinningIndexBuilder.
Aug 1, 2017 -
13 new comments
Open
#835
VCFHeader, VCFCodec and VCFHeaderLine refactoring for VCF4.3/BCF2.2
Jul 27, 2017 -
0 new comments
Open
#758
MD5 for fastq.gz files are wrong
Jul 27, 2017 -
0 new comments
Open
#908
TabixReader bug in query(String) method for coordiantes with 0 values
Jul 29, 2017