Commits

Author Commit Message Labels Comments Date
Borja Sotomayor
Remove GO Transfer API client. API client must now be installed separately from PyPI. Also modified the transfer client to only call the display_* methods when DEBUG is True.
Borja Sotomayor
Fail gracefully if endpoint ls fails
Borja Sotomayor
Not on BioNimbus anymore. This is a kludge, but we're going to work on EC2 for the forseeable future, so this will do for now. Eventually, we need to come up with a general way of specifying the location of the global scratch directory.
Borja Sotomayor
Updated GO code to v10 API. Updated location of root certificate.
davi...@gmail.com
Swift scripts
davi...@gmail.com
QC swift scripts
Bryce Allen
merge upstream
Bryce Allen
add cid file to condor_run temp dir for debugging
Mike Steder
Merged in changes from bryce
Mike Steder
Added swift scripts and hacked demuxer to work with chromosome files
Bryce Allen
merge upstream
Bryce Allen
fix qc2-part fastq conversion
Mike Steder
Merged in yet more tool changes.
Mike Steder
Merged in some tool changes from byrce
Mike Steder
added map2bam tool
Mike Steder
got demuxer working
Mike Steder
Modified map2sam script to include lane/part filters
Mike Steder
Working on bionimbus.
Bryce Allen
improve qc scripts and doc
Bryce Allen
remove dup date debug
Bryce Allen
update qc pipelines, add new version
Bryce Allen
add qc scripts, update cgapipe
Bryce Allen
make cgapipe work on data with errors
Mike Steder
Added tool demuxer.
David Kelly
Several updates to swift scripts JSON input/output Get some swift settings from galaxy INI files
Bryce Allen
merge cgapipe with upstream
Bryce Allen
add cgapipe script
David Kelly
Initial commit of swift scripts for cga pipeline
Mike Steder
Merged in changes from bionimbus
Mike Steder
Added hack to allow selection of lane and part when running map2sam
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