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port ucsc_gather to rdflib
[htsworkflow.git]
/
extra
/
2011-12-20
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
tree
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commitdiff
2011-12-20
Diane Trout
Move ucsc_encode_submission code out of extra so nose...
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commitdiff
2011-12-20
Diane Trout
Remove eXecute bit from modules
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commitdiff
2011-12-20
Diane Trout
Include the test data for testing importing ucsc downlo...
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commitdiff
2011-12-20
Diane Trout
Deleted obsolete tests
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commitdiff
2011-12-20
Diane Trout
Try to figure out where UCSC is hosting our submitted...
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commitdiff
2011-11-05
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
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commitdiff
2011-11-04
Diane Trout
Use a logger initialized to the module name much more...
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commitdiff
2011-09-30
Diane Trout
Sparql query to back create protocol & treatment from...
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commitdiff
2011-09-30
Diane Trout
find submissions, even those without a set creation...
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commitdiff
2011-09-30
Diane Trout
store md5sum of daf files to group different submissions
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commitdiff
2011-09-30
Diane Trout
Configure daf variables in only one place. (daf.py)
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commitdiff
2011-09-21
Diane Trout
Switch from beautifulsoup to lxml, now that I know...
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commitdiff
2011-09-21
Diane Trout
Rename ucsc submission namespace to be more consistent...
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commitdiff
2011-09-02
Diane Trout
Attempt to download DAF data for a encodesubmit submission
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commitdiff
2011-09-02
Diane Trout
Add error message for requesting link-daf but no daf...
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commitdiff
2011-07-28
Diane Trout
Examine the DAF to determine if the DDF needs to includ...
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commitdiff
2011-07-20
Diane Trout
Stop copying attributes from library to a submission...
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commitdiff
2011-07-20
Diane Trout
Add an option to print out an example view to extension...
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commitdiff
2011-07-20
Diane Trout
Make searching library & cell line more robust to missi...
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commitdiff
2011-07-20
Diane Trout
Search for both encode & mouse encode projects.
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commitdiff
2011-07-20
Diane Trout
Update old dt-overrides.turtle example to use the newer...
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commitdiff
2011-07-07
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
tree
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commitdiff
2011-07-07
Diane Trout
Fix namespace issues in encode_find after the conversion
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commitdiff
2011-06-30
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
tree
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commitdiff
2011-06-30
Diane Trout
The proper DDF variable name for files to be submitted...
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commitdiff
2011-06-30
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
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commitdiff
2011-06-30
Diane Trout
switch fix_ob3 to the better way of finding settings...
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commitdiff
2011-06-29
Diane Trout
Further clean up ddf generation.
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commitdiff
2011-06-23
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
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commitdiff
2011-06-22
Diane Trout
allow running ucsc_gather --fastq without specifying...
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commitdiff
2011-06-21
Diane Trout
Finish new RDF based ddf construction.
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commitdiff
2011-06-18
Diane Trout
Rework ucsc gather to use RDF models for gathering...
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commitdiff
2011-06-18
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
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commitdiff
2011-06-17
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
tree
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commitdiff
2011-06-15
Diane Trout
Start to move all the RDF namespace definitions into...
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commitdiff
2011-06-15
Diane Trout
Move code to make srf and qseq to fastq condor scripts...
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commitdiff
2011-05-26
Diane Trout
Merge branch 'add-condition'
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commitdiff
2011-05-18
Diane Trout
Write the librdf model database somewhere other than...
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commitdiff
2011-05-09
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
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commitdiff
2011-05-09
Diane Trout
Add utility program to help find what exists in georgi...
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commitdiff
2011-04-06
Diane Trout
django-nose didn't work with django 1.1, so I went...
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commitdiff
2011-04-02
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
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commitdiff
2011-03-30
Diane Trout
Update single vs paired guessing code
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commitdiff
2011-02-26
Diane Trout
Save the overrides to the RDF model.
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commitdiff
2011-02-26
Diane Trout
Only pull web data when its missing from the rdf model.
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commitdiff
2011-02-17
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
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commitdiff
2011-02-17
Diane Trout
Major updateds to encode_find for extracting encode...
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commitdiff
2011-02-17
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
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commitdiff
2011-02-16
Diane Trout
Add in patterns for Encode Elements submission
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commitdiff
2011-02-15
Diane Trout
Starting component to try and figure out what we've...
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commitdiff
2011-02-15
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
tree
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commitdiff
2011-02-15
Diane Trout
Make plus/minus bigwig filename extension a bit more...
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commitdiff
2011-02-14
Diane Trout
Add in support for generating md5sums for files
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commitdiff
2011-01-25
root
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
tree
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commitdiff
2011-01-25
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
tree
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commitdiff
2011-01-21
Diane Trout
Update view names as per Cricket for the Jan 21st encod...
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commitdiff
2011-01-21
Diane Trout
Merge branch 'master' of gitosis@mus.cacr.caltech.edu...
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commitdiff
2011-01-21
Diane Trout
Add function to ucsc submission tool to make symlink...
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commitdiff
2010-12-21
Diane Trout
Add utility to fix the off-by-3 error in the amplified...
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commitdiff
2010-11-17
Diane Trout
Cache the attributes for each type of fastq file.
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commitdiff
2010-11-16
Diane Trout
Map junctions.bed to the Junctions view.
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commitdiff
2010-11-16
Diane Trout
Autodetect location of *2fastq scripts
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commitdiff
2010-11-15
Diane Trout
Don't count failed flowcells when guessing if a library...
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commitdiff
2010-11-07
Diane Trout
Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow
tree
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commitdiff
2010-11-05
Diane Trout
Update to the new UCSC DAF file.
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commitdiff
2010-11-03
Diane Trout
Create a class to handle mapping extension to ucsc...
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commitdiff
2010-11-02
Diane Trout
Two lines between functions (trivial change)
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commitdiff
2010-10-22
Diane Trout
Report version number derived from git tag.
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commitdiff
2010-08-24
Diane Trout
Split parts of build_fastqs into a seperate function.
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commitdiff
2010-07-14
Diane Trout
Georgi used slightly different extensions for the secon...
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commitdiff
2010-07-12
Diane Trout
Use the htsworkflow API to determine if a flowcell...
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commitdiff
2010-07-09
Diane Trout
Since srf2named_fastq detects what type of srf file...
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commitdiff
2010-07-08
Diane Trout
Add option to force overwriting old fastqs.
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commitdiff
2010-06-22
Diane Trout
Save changes needed to submit to UCSC in Jun 2010.
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commitdiff
2010-06-11
Diane Trout
Collect fastqs by read and add them to the configuratio...
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commitdiff
2010-06-11
Diane Trout
Put partial support back in for srf files.
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commitdiff
2010-06-10
Diane Trout
Add script to try and build submissions to the UCSC...
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commitdiff