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robmaz
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distmap
Sequence alignment on Hadoop
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Mapper-related distmap arguments should be conditional
#83
magicDGS
opened
6 years ago
0
Job priority cannot be set (--job-priority does not exists)
#82
magicDGS
opened
6 years ago
0
Expose bin/distmap hardcoded number_of_processors?
#81
magicDGS
opened
6 years ago
1
Remove picard for mapping step
#80
magicDGS
closed
6 years ago
5
Deprecate --only-merge and use always ReadTools for download
#79
magicDGS
closed
6 years ago
0
Remove picard requirement
#78
magicDGS
opened
6 years ago
3
Remove samtools binaries
#77
magicDGS
closed
6 years ago
0
Organize distmap launcher and add version argument
#76
magicDGS
closed
6 years ago
2
Fix dependencies in README
#75
magicDGS
closed
6 years ago
0
Fixed typo in help
#74
magicDGS
closed
6 years ago
0
Remove samtools dependency
#73
magicDGS
closed
6 years ago
0
Perl syntax check fails for almost every file in the bin package
#72
magicDGS
opened
6 years ago
0
Perl syntax check fails for almost every file in the lib package
#71
magicDGS
opened
6 years ago
0
Remove usages of HadoopTrimming
#70
magicDGS
closed
6 years ago
0
Remove HadoopTrimming package and related codepaths
#69
magicDGS
closed
6 years ago
1
Better POD for usage
#68
magicDGS
closed
6 years ago
2
Remove unused/oudated usage string
#67
magicDGS
closed
6 years ago
3
bin/distmap script should be just a command line parser
#66
magicDGS
opened
6 years ago
0
Use properly pod2usage to print help
#65
magicDGS
opened
6 years ago
1
--only-download-trimmed-reads will be broken after ReadTools integration
#64
magicDGS
closed
6 years ago
3
Extract ReadToolsUtils for version and trimming
#63
magicDGS
closed
6 years ago
0
Fix assignation of picard.jar to readtools
#62
magicDGS
closed
6 years ago
0
Delete libexec folder and all bundled binaries
#61
magicDGS
closed
6 years ago
1
Fix bugs reported in issue #57
#60
robmaz
closed
6 years ago
0
What is the purpose of clean-libexec.sh
#59
magicDGS
closed
6 years ago
4
Add a dry-run option
#58
magicDGS
opened
6 years ago
2
Current version in master failure
#57
magicDGS
closed
6 years ago
2
/usr/bin/perl -> /usr/bin/env perl
#56
robmaz
closed
6 years ago
0
Change /usr/bin/perl for /usr/bin/env perl
#55
magicDGS
closed
6 years ago
1
Rm rv34t4b
#54
robmaz
closed
6 years ago
0
readtools --trimmer support
#53
robmaz
closed
6 years ago
7
hdfs: use 4mc instead of bzip2/gzip
#52
robmaz
opened
6 years ago
3
hdfs: don't write to /
#51
robmaz
closed
5 years ago
1
New idea: using docker containers for mappers
#50
magicDGS
opened
6 years ago
3
support BAM input
#49
robmaz
opened
6 years ago
2
Move perl5lib to lib/perl5/site_perl
#48
robmaz
closed
6 years ago
0
Fix HADOOP_HOME & Co.
#47
robmaz
closed
6 years ago
1
Better error message for some arguments check
#46
magicDGS
closed
6 years ago
2
Move stuff to libexec
#45
robmaz
closed
6 years ago
4
Move root scripts to bin
#44
robmaz
closed
6 years ago
1
Use python for mapper scripts
#43
magicDGS
opened
6 years ago
0
Rm move perlmodules to libperl
#42
robmaz
closed
6 years ago
3
Move bundled jars into shared/java
#41
robmaz
closed
6 years ago
3
Remove duplicated and unused bwa_mapping copy
#40
magicDGS
closed
6 years ago
0
Use by default picard.jar instead of old picard jars
#39
magicDGS
closed
6 years ago
4
Remove support for deprecated picard tools
#38
magicDGS
closed
6 years ago
1
Remove unused jars in executables
#37
magicDGS
closed
6 years ago
0
Remove unused python scripts
#36
magicDGS
closed
6 years ago
0
find Linux_executables/ -name "*.jar" -exec rm -f {} \;
#35
robmaz
closed
6 years ago
1
Remove unused "backup" copies (pattern "bin/*-1.p?")
#34
robmaz
closed
6 years ago
1
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