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Commits : Listings

Analyzed 1 day ago. based on code collected 2 days ago.
Aug 26, 2025 — Aug 26, 2026
Commit Message Contributor Files Modified Lines Added Lines Removed Code Location Date
Disable metadata write-back (needs testing)
Denis Yuen
More... over 13 years ago
Further fix, metadata object does not return accessions, it returns IDs which have to be translated
Denis Yuen
More... over 13 years ago
Merge branch 'feature/SEQWARE-1400_continued_oozie_improvements' of github.com:SeqWare/seqware into feature/SEQWARE-1400_continued_oozie_improvements
Brian O'Connor
More... over 13 years ago
Iterate version number and add some tests for the ini file changes
Denis Yuen
More... over 13 years ago
Merge branch 'feature/SEQWARE-1400_continued_oozie_improvements' of github.com:SeqWare/seqware into feature/SEQWARE-1400_continued_oozie_improvements
Brian O'Connor
More... over 13 years ago
Just adding some placeholds to the doc, some debug messages that will need to be removed
Brian O'Connor
More... over 13 years ago
Added the option to define fields on the command line rather than specifying them at runtime
Morgan Taschuk
More... over 13 years ago
Bug fixes found and partially tested during deployment to production.
Denis Yuen
More... over 13 years ago
Bug fixing. Re-ordered some steps. Migrated more code out of BatchMetadataInjection
Morgan Taschuk
More... over 13 years ago
extended the internal hashmap so it does not accept null values
Morgan Taschuk
More... over 13 years ago
Added a new LowLevel method called getObject that does not catch any exceptions. Added a new method called existsObject that calls getOBject and handles those exceptions. Changed findObject method to call getObject and handle exceptions accordingly. Changed the new methods added for BatchMetadataInjection so that they use existsObject method. Changed some error messages.
Morgan Taschuk
More... over 13 years ago
Modified the toString methods so they print in a more user-friendly manner
Morgan Taschuk
More... over 13 years ago
Documentation updates
Denis Yuen
More... over 13 years ago
Merge branch 'feature/SEQWARE-1400_continued_oozie_improvements' of github.com:SeqWare/seqware into feature/SEQWARE-1400_continued_oozie_improvements
Brian O'Connor
More... over 13 years ago
Not tested yet, but made the parsing code for BatchMetadataInjection BEAUTIFUL. Now it fully parses the file and prompts for values before they are created in the DB. Separated out the *Info classes from BMI to make it easier to read. BMI is now totally generic and new parsers can be added. Created a factory-like structure in BatchMetadataParser that new parsers can be built from that enforces the standard naming conventions. Can now annotate every table. Changed the calls to promptString, promptInteger, promptBoolean to use the ConsoleAdapter class. Still need to write tests
Morgan Taschuk
More... over 13 years ago
Added promptString, promptInteger, and promptBoolean to ConsoleAdapter
Morgan Taschuk
More... over 13 years ago
Fixed problem with newlines in digraph
Morgan Taschuk
More... over 13 years ago
Correct null pointer exception when no sequencer runs exist
Morgan Taschuk
More... over 13 years ago
Lots of changes, and hopefully it works now! Added features to facilitate adding similar samples; removed extraneous println statements; created a feature to print out the dot diagram to the command line
Morgan Taschuk
More... over 13 years ago
Fixed a bug with adding samples wihtout interactive feedback; formatted the interactive mode so that things are easier to read; removed extraneous print statements
Morgan Taschuk
More... over 13 years ago
Merge branch 'develop' into feature/BatchInjectTakeTwo
seqware
More... over 13 years ago
Added annotations to Lane and Sample and added checks for nulls. Still not fully debugged
seqware
More... over 13 years ago
Added a printout statement to Metadata plugin to debug
seqware
More... over 13 years ago
Modified MetadataWS so that the new methods don't err out when an object is not found. Also when annotating samples and lanes, retrieve the attributes when adding them
seqware
More... over 13 years ago
Documentation updates
Denis Yuen
More... over 13 years ago
Corrected a missing field parameter in Metadata for IUSes (it wasn't checking for barcodes). Added functionality for adding annotations in the BatchMetadataInjection class
Morgan Taschuk
More... over 13 years ago
Merge branch 'develop' into feature/BatchInjectTakeTwo
Morgan Taschuk
More... over 13 years ago
Update docs
Denis Yuen
More... over 13 years ago
Iterate version numbers
Denis Yuen
More... over 13 years ago
Merge tag '0.13.6.2' into develop
Denis Yuen
More... over 13 years ago