Commits

Author Commit Message Labels Comments Date
Borja Sotomayor
Remove GO Transfer API client.
Borja Sotomayor
Fail gracefully if endpoint ls fails
Borja Sotomayor
Not on BioNimbus anymore.
Borja Sotomayor
Updated GO code to v10 API. Updated location of root certificate.
davi...@gmail.com
QC swift scripts
Bryce Allen
add cid file to condor_run temp dir for debugging
Mike Steder
Added swift scripts and hacked demuxer to work with chromosome files
Bryce Allen
fix qc2-part fastq conversion
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
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
Mike Steder
Tweaked map2sam condor tool to actually include the right cgatools map2sam path.
Mike Steder
Added unversioned picard tools installed by Alex
Mike Steder
Changed extension 'cgadata' to 'cga', updated peek to show more useful info instead of just the full json blob.
Mike Steder
Updated transfer tool to handle instances where no DATA key is returned by the Transfer API.
Mike Steder
Got map2sam working with smaller datasets, still waiting on full run...
Mike Steder
Disabled debugging prints in controller expose decorator
Mike Steder
Added map2sam xml and tweaked everything to work with cgadata datasets, need to test in a condor environment.
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