| 2009-02-26 |
Diane Trout | Remove a few more fields that we dont use, and change...
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commit | commitdiff | tree |
| 2009-02-24 |
Diane Trout | simplify library admin index view
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commit | commitdiff | tree |
| 2009-02-17 |
Diane Trout | Add script to convert current caltech v0.1.x database...
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commit | commitdiff | tree |
| 2009-02-17 |
Diane Trout | Merge flowcell 'paired_end' flag from v0.1 branch
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commit | commitdiff | tree |
| 2009-02-17 |
Diane Trout | remove cfg_defaults. It was part of an idea I was starting...
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commit | commitdiff | tree |
| 2009-02-13 |
Diane Trout | Reverse a mistake. DataRuns is from Rami and should...
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commit | commitdiff | tree |
| 2009-02-13 |
Diane Trout | enable sort of library view by descending library_id
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commit | commitdiff | tree |
| 2009-02-13 |
Diane Trout | save longer comment describing change
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commit | commitdiff | tree |
| 2009-02-13 |
Diane Trout | Aparently some more recent version of multi eland stopped
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commit | commitdiff | tree |
| 2009-02-13 |
Diane Trout | Merge in the library list, detail, and results downloading...
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commit | commitdiff | tree |
| 2009-02-13 |
Diane Trout | use the compression handling auto-opener for our eland...
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commit | commitdiff | tree |
| 2009-02-12 |
Diane Trout | make our API docstrings more epydoc friendly
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commit | commitdiff | tree |
| 2009-02-12 |
Diane Trout | Add load_pipeline_run_xml, a little function that feeds...
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commit | commitdiff | tree |
| 2009-02-05 |
Diane Trout | Drop 'using %s as cwd' down to just debug level.
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commit | commitdiff | tree |
| 2009-01-30 |
Diane Trout | extended command line configuration parsing and add...
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commit | commitdiff | tree |
| 2009-01-30 |
Diane Trout | Try to make runfolder results extraction more robust
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commit | commitdiff | tree |
| 2009-01-30 |
Diane Trout | Update to not hard code the config file name and the...
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commit | commitdiff | tree |
| 2009-01-24 |
Diane Trout | insert code to do ~ home directory expansion
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commit | commitdiff | tree |
| 2009-01-23 |
Diane Trout | Add in Rami's report template, and adjust the paths...
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commit | commitdiff | tree |
| 2009-01-23 |
Diane Trout | Add id as an AutoNumber(primary_key=True) field and...
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commit | commitdiff | tree |
| 2009-01-21 |
Diane Trout | Merge in Rami's changes from last friday.
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commit | commitdiff | tree |
| 2009-01-14 |
Diane Trout | add some testing code for the runner daemon
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commit | commitdiff | tree |
| 2009-01-14 |
Diane Trout | add empty admin.py for eland_config app
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commit | commitdiff | tree |
| 2009-01-14 |
Diane Trout | Merged much of the stanford htsworkflow frontend into...
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commit | commitdiff | tree |
| 2009-01-08 |
Diane Trout | This is a partial merge of the stanford branch with...
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commit | commitdiff | tree |
| 2009-01-06 |
Diane Trout | Look in Temp directories for some of the files we have...
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commit | commitdiff | tree |
| 2008-12-24 |
Diane Trout | Handle paired-end eland files.
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commit | commitdiff | tree |
| 2008-12-24 |
Diane Trout | remove a debug print statement
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commit | commitdiff | tree |
| 2008-12-24 |
Diane Trout | Add test cases for alphanum sort
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commit | commitdiff | tree |
| 2008-12-24 |
Diane Trout | Support sorting numbers along with the alphanumeric...
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commit | commitdiff | tree |
| 2008-12-23 |
Diane Trout | change from hand coded formatting functions to the...
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commit | commitdiff | tree |
| 2008-12-23 |
Diane Trout | Use the right URLError attribute names for error messages
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commit | commitdiff | tree |
| 2008-12-22 |
Diane Trout | update make-tree-library script with new default location
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commit | commitdiff | tree |
| 2008-12-22 |
Diane Trout | fix the multi-eland parser to strip off extensions...
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commit | commitdiff | tree |
| 2008-12-22 |
Diane Trout | clean up the logic for deciding the output filename...
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commit | commitdiff | tree |
| 2008-12-19 |
Diane Trout | Add command to report path to make figuring out which...
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commit | commitdiff | tree |
| 2008-12-18 |
Diane Trout | rename config file to something that doesn't include...
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commit | commitdiff | tree |
| 2008-12-10 |
Diane Trout | The summary parsing code now seems to handle paired...
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commit | commitdiff | tree |
| 2008-12-09 |
Diane Trout | Test 1.1rc1 style runs, which unfortunately require...
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commit | commitdiff | tree |
| 2008-12-03 |
Diane Trout | make-library-tree is a tool to maintain caltech's version...
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commit | commitdiff | tree |
| 2008-12-03 |
Diane Trout | Add test code to see if runfolder can handle something...
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commit | commitdiff | tree |
| 2008-12-03 |
Diane Trout | Add code to create a paired end Summary.htm file
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commit | commitdiff | tree |
| 2008-12-03 |
Diane Trout | Store the bustard pathname when searching for run folders
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commit | commitdiff | tree |
| 2008-11-21 |
Diane Trout | Use the get_runs from htsworkflow.pipelines.runfolder
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commit | commitdiff | tree |
| 2008-11-14 |
Diane Trout | Forgot to change a import htsworkflow.pipeline to htsworflow...
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commit | commitdiff | tree |
| 2008-11-06 |
Diane Trout | Updated ipar_100 test case to deal with the using U0...
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commit | commitdiff | tree |
| 2008-11-06 |
Diane Trout | Process eland extended (or multi) read files.
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commit | commitdiff | tree |
| 2008-10-30 |
Diane Trout | The htsworkflow.pipelines.gerald module was getting...
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commit | commitdiff | tree |
| 2008-10-30 |
Diane Trout | Add support for scanning for results in the IPAR directory.
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commit | commitdiff | tree |
| 2008-10-30 |
Diane Trout | Add "_slow" to the end of the queuecommand test functions
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commit | commitdiff | tree |
| 2008-10-28 |
Diane Trout | update setup.py for some package renames and some missing...
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commit | commitdiff | tree |
| 2008-10-21 |
Diane Trout | Merge in new modules from htsworkflow branch.
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commit | commitdiff | tree |
| 2008-10-21 |
Diane Trout | Merge in model changes to fctracker from htsworkflow...
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commit | commitdiff | tree |
| 2008-10-21 |
Diane Trout | update scripts for the pipeline to pipelines module...
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commit | commitdiff | tree |
| 2008-10-15 |
Diane Trout | rename pipeline to pipelines to imply that we can process...
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commit | commitdiff | tree |
| 2008-10-15 |
Diane Trout | Rename trunk from gaworkflow to htsworkflow (and update...
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commit | commitdiff | tree |
| 2008-09-25 |
Diane Trout | solexa2srf likes to produce output, so my trick of...
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commit | commitdiff | tree |
| 2008-09-25 |
Diane Trout | use _ for field seperator in srf file names. (Using...
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commit | commitdiff | tree |
| 2008-09-18 |
Diane Trout | Use queuecommands.run not queuecommands.start_job to...
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commit | commitdiff | tree |
| 2008-09-18 |
Diane Trout | Be a little more informative about how many process...
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commit | commitdiff | tree |
| 2008-09-05 |
Diane Trout | extract status field out of flowcell name.
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commit | commitdiff | tree |
| 2008-08-29 |
Diane Trout | Add support for converting mutli-eland files from pipeline...
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commit | commitdiff | tree |
| 2008-08-29 |
Diane Trout | insert stub clean_runs function to list roughly what...
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commit | commitdiff | tree |
| 2008-08-15 |
Diane Trout | Improve code to extract runfolder name from the path...
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commit | commitdiff | tree |
| 2008-08-14 |
Diane Trout | In trying to get scripts/srf to work I needed to set...
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commit | commitdiff | tree |
| 2008-08-14 |
Diane Trout | refactor code to make a runfolder out of the UnitTest...
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commit | commitdiff | tree |
| 2008-08-14 |
Diane Trout | we might as well automatically save the Summary.htm...
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commit | commitdiff | tree |
| 2008-08-14 |
Diane Trout | Utility to create srf files from a bustard directory
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commit | commitdiff | tree |
| 2008-08-11 |
Diane Trout | A bit of refactoring toward making the run progress...
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commit | commitdiff | tree |
| 2008-07-16 |
Diane Trout | The older pipeline runs had a Phi-X control lane which...
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commit | commitdiff | tree |
| 2008-07-15 |
Diane Trout | Provide cross referencing information to the libraries...
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commit | commitdiff | tree |
| 2008-07-07 |
Diane Trout | Finish updating the Summary parsing file to handle...
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commit | commitdiff | tree |
| 2008-07-03 |
Diane Trout | Partially handle the changed Summary.htm file from...
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commit | commitdiff | tree |
| 2008-06-24 |
Diane Trout | Detect if our watch is on a mount point.
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commit | commitdiff | tree |
| 2008-06-17 |
Diane Trout | Add QueueCommands, a class that allows controlling...
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commit | commitdiff | tree |
| 2008-06-06 |
Diane Trout | don't use os.path.normpath when pathname is null in...
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commit | commitdiff | tree |
| 2008-06-05 |
Diane Trout | add --extract-results to scripts/runfolder
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commit | commitdiff | tree |
| 2008-05-29 |
Diane Trout | Some of the older flow cells used a default genome...
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commit | commitdiff | tree |
| 2008-05-28 |
Diane Trout | Compute all the details needed to create our 25bp rerun...
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commit | commitdiff | tree |
| 2008-05-27 |
Diane Trout | ignore more *.py[co~] files in some of our test directories
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commit | commitdiff | tree |
| 2008-05-23 |
Diane Trout | add --run-xml to runfolder so you can generate summary...
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commit | commitdiff | tree |
| 2008-05-23 |
Diane Trout | Update pipeline.gerald to handle eland_result files...
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commit | commitdiff | tree |
| 2008-05-15 |
Diane Trout | add rerun_eland.py which extracts sub-sequences from...
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commit | commitdiff | tree |
| 2008-05-14 |
Diane Trout | separate computing the sample/lane_id names from calculating...
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commit | commitdiff | tree |
| 2008-05-13 |
Diane Trout | add additional debugging logging to retrieve_config...
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commit | commitdiff | tree |
| 2008-05-13 |
Diane Trout | logging.basicConfig should only be in top level scripts.
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commit | commitdiff | tree |
| 2008-05-10 |
Diane Trout | make it possible to include all alignments, not just...
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commit | commitdiff | tree |
| 2008-05-10 |
Diane Trout | makebed is a script too
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commit | commitdiff | tree |
| 2008-05-10 |
Diane Trout | Keep track of sample_name and lane_id computed from...
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commit | commitdiff | tree |
| 2008-05-09 |
Diane Trout | Make the runfolder splitting patch a bit more python...
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commit | commitdiff | tree |
| 2008-05-09 |
Diane Trout | update the setup.py file to the new name for the runfolder...
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commit | commitdiff | tree |
| 2008-05-09 |
Diane Trout | Move runfolder analysis classes out of scripts/runfolder...
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commit | commitdiff | tree |
| 2008-04-24 |
Diane Trout | Add a script that takes a set of eland_result files...
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commit | commitdiff | tree |
| 2008-04-24 |
Diane Trout | Report cluster results with the rest of the lane summary...
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commit | commitdiff | tree |
| 2008-04-22 |
Diane Trout | also since nothing is currently using the pipelineFinished...
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commit | commitdiff | tree |
| 2008-04-22 |
Diane Trout | oops forgot to remove some debugging statements from...
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commit | commitdiff | tree |
| 2008-04-22 |
Diane Trout | Extend makebed to lookup metadata out of a copy of...
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commit | commitdiff | tree |
| 2008-04-21 |
Diane Trout | split the library script into a reusable database/reporting...
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commit | commitdiff | tree |
| 2008-04-21 |
Diane Trout | Ignore binary files generated by python (*.py[co])
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commit | commitdiff | tree |
| 2008-04-09 |
Diane Trout | Add library.py, a script to extract a useful description...
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commit | commitdiff | tree |
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