Commits for wong
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v258_base to v259_preview (2011-10-10 to 2011-10-25) v259
- first attempt for deprecated support
- src/hg/encode/encodeValidate/doEncodeValidate.pl - lines changed 23, context: html, text, full: html, text
- cleaned up some cv validator stuff
- python/lib/ucscgenomics/cv.py - lines changed 4, context: html, text, full: html, text
- python/lib/ucscgenomics/test/test_cv - lines changed 32, context: html, text, full: html, text
- python/lib/ucscgenomics/test/test_cv_input/Antibody/NonmatchKey.ra - lines changed 9, context: html, text, full: html, text
- python/lib/ucscgenomics/test/test_cv_input/Antibody/ValidStanza.ra - lines changed 9, context: html, text, full: html, text
- python/lib/ucscgenomics/test/test_cv_input/CellLine/BlankKey.ra - lines changed 9, context: html, text, full: html, text
- python/lib/ucscgenomics/test/test_cv_input/CellLine/ExtraKey.ra - lines changed 9, context: html, text, full: html, text
- python/lib/ucscgenomics/test/test_cv_input/CellLine/MissingKey.ra - lines changed 10, context: html, text, full: html, text
- python/lib/ucscgenomics/test/test_cv_input/CellLine/NonmatchKey.ra - lines changed 9, context: html, text, full: html, text
- python/lib/ucscgenomics/test/test_cv_input/CellLine/ValidStanza.ra - lines changed 10, context: html, text, full: html, text
- python/lib/ucscgenomics/test/test_cv_input/Mouse/NonmatchKey.ra - lines changed 9, context: html, text, full: html, text
- python/lib/ucscgenomics/test/test_cv_input/Mouse/ValidStanza.ra - lines changed 9, context: html, text, full: html, text
- added comment about term cell line validating
- src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 2, context: html, text, full: html, text
- stable version of mkChangeNotes, still very alpha
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 398, context: html, text, full: html, text
- draft 2, reformatted output, changed how certain functions work, still could shed a lot of code, but conceptually it's there
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 360, context: html, text, full: html, text
- added supplemental file support
- python/lib/ucscgenomics/track.py - lines changed 6, context: html, text, full: html, text
- some minor corrections and fixed a bug for calculating revoked files, pigeon hole expansion problem
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 36, context: html, text, full: html, text
- added comments, changed how paths are printed, added automatic gigabyte printing for file sizes
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 95, context: html, text, full: html, text
- added new property httpDownloadsPath, which is the symlinked directory that QA uses in their emails
- python/lib/ucscgenomics/track.py - lines changed 8, context: html, text, full: html, text
- updated md5sums and added bais
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromChip.ra - lines changed 23, context: html, text, full: html, text
- added in solo release functionality, changed how certain things are diaplayed, loose mode for md5sum check
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 47, context: html, text, full: html, text
- commiting for willy, he added in geo sample accessions
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromDnase.ra - lines changed 348, context: html, text, full: html, text
- first draft of qaUpdateMetaData
- python/programs/qaUpdateMetadata/qaUpdateMetadata - lines changed 81, context: html, text, full: html, text
- fixed a logic error for reporting
- python/programs/qaUpdateMetadata/qaUpdateMetadata - lines changed 9, context: html, text, full: html, text
- added explanation of revoked status
- src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeChromatinMap.ra - lines changed 8, context: html, text, full: html, text
- removed checking of table dropping, as the table list was generated off mdb, so it's redundant to the mdb errors, and there's no way to tell the state of the tables at time fo release
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 8, context: html, text, full: html, text
- forgot to implement the round up for file sizes, it was in table sizes
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 5, context: html, text, full: html, text
- first draft of qaInit
- python/programs/qaInit/qaInit.py - lines changed 395, context: html, text, full: html, text
- added some stuff for QA functions
- python/lib/ucscgenomics/track.py - lines changed 13, context: html, text, full: html, text
- added noupdate to the usage statement
- src/hg/encode/encodeMkFilesList/encodeMkFilesList - lines changed 1, context: html, text, full: html, text
- some minor changes and subId change status ability
- python/programs/qaInit/qaInit.py - lines changed 26, context: html, text, full: html, text
- removed testing dir from qaInitDir
- python/lib/ucscgenomics/track.py - lines changed 1, context: html, text, full: html, text
- started tests for mkChangeNotes, inserting initial round of metaDb states
- python/programs/mkChangeNotes/tests/release1test/wgEncodeTest.public.ra - lines changed 73, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release2v1test/wgEncodeTest.alpha.ra - lines changed 143, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release2v1test/wgEncodeTest.public.ra - lines changed 73, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release3v2test/wgEncodeTest.alpha.ra - lines changed 137, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release3v2test/wgEncodeTest.public.ra - lines changed 143, context: html, text, full: html, text
- renamed release1 state metaDb to alpha
- python/programs/mkChangeNotes/tests/release1test/wgEncodeTest.alpha.ra - lines changed 73, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release1test/wgEncodeTest.public.ra - lines changed 73, context: html, text, full: html, text
- fixed spelling error
- python/programs/mkChangeNotes/tests/release1test/wgEncodeTest.alpha.ra - lines changed 1, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release2v1test/wgEncodeTest.public.ra - lines changed 1, context: html, text, full: html, text
- calculates filesize on real file now, follows symlinks
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 3, context: html, text, full: html, text
- added an empty line to make output consistent
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 1, context: html, text, full: html, text
- changed persiting to untouched, make full mode default, new option is summary
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 22, context: html, text, full: html, text
- made the output printing smarter, and not as much zeros
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 42, context: html, text, full: html, text
- added back in null fizesize counts
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 8, context: html, text, full: html, text
- putting in a fake trackDb
- src/hg/makeDb/trackDb/human/hg19/wgEncodeTest.ra - lines changed 1, context: html, text, full: html, text
- renamed qaInit.py to qaInit
- python/programs/qaInit/qaInit - lines changed 417, context: html, text, full: html, text
- python/programs/qaInit/qaInit.py - lines changed 417, context: html, text, full: html, text
- readded test directory
- python/lib/ucscgenomics/track.py - lines changed 1, context: html, text, full: html, text
- Merge branch 'master' into validate
- corrected variable spelling error
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 1, context: html, text, full: html, text
- rebalanced the indents on doEncodeValidate to use only 4 spaces (removed tabs), fixed deprecated detection function
- src/hg/encode/encodeValidate/doEncodeValidate.pl - lines changed 43, context: html, text, full: html, text
- rebalanced indentation on isDeprecated function
- src/hg/encode/encodeValidate/doEncodeValidate.pl - lines changed 2, context: html, text, full: html, text
- refactored to allow for using unittest to unit test
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 345, context: html, text, full: html, text
- test for mkChangeNotes
- python/programs/mkChangeNotes/mkChangeNotes - lines changed 658, context: html, text, full: html, text
- python/programs/mkChangeNotes/mkChangeNotes.py - lines changed 658, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/CurrentMkChangeNotes.py - lines changed 658, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/CurrentMkChangeNotes.pyc - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
- python/programs/mkChangeNotes/tests/mkChangeTest.py - lines changed 72, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release1test/wgEncodeTest.ra - lines changed 73, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release2test/wgEncodeTest.ra - lines changed 143, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release3test/wgEncodeTest.ra - lines changed 145, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release4test/wgEncodeTest.ra - lines changed 173, context: html, text, full: html, text
- removed old testing structure, and changes name of class in mkChangenotes
- python/programs/mkChangeNotes/mkChangeNotes.py - lines changed 6, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release1test/wgEncodeTest.alpha.ra - lines changed 73, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release2v1test/wgEncodeTest.alpha.ra - lines changed 143, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release2v1test/wgEncodeTest.public.ra - lines changed 73, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release3v2test/wgEncodeTest.alpha.ra - lines changed 137, context: html, text, full: html, text
- python/programs/mkChangeNotes/tests/release3v2test/wgEncodeTest.public.ra - lines changed 143, context: html, text, full: html, text
- added some attributes for testing
- python/lib/ucscgenomics/track.py - lines changed 3, context: html, text, full: html, text
- added comment
- python/programs/mkChangeNotes/tests/mkChangeTest.py - lines changed 2, context: html, text, full: html, text
- rebalanced white space
- python/programs/mkChangeNotes/tests/mkChangeTest.py - lines changed 6, context: html, text, full: html, text
- second draft at packaging mkChangeNotes
- src/hg/encode/mkChangeNotes/mkChangeNotes.py - lines changed 118, context: html, text, full: html, text
- modified mkChangeTest to handle packacked mkChangeNotes
- src/hg/encode/mkChangeNotes/tests/CurrentMkChangeNotes.py - lines changed 122, context: html, text, full: html, text
- src/hg/encode/mkChangeNotes/tests/CurrentMkChangeNotes.pyc - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
- src/hg/encode/mkChangeNotes/tests/mkChangeTest.py - lines changed 10, context: html, text, full: html, text
- started qa algorithms for checking track stuff
- python/lib/ucscgenomics/qa.py - lines changed 123, context: html, text, full: html, text
- added an attribute I will need in the future
- python/lib/ucscgenomics/track.py - lines changed 1, context: html, text, full: html, text
- added functionality to check with mkChangeNotes at runtime and compare to notes file to check if anythign changed since notes was checked in
- src/hg/encode/qaInit/qaInit - lines changed 43, context: html, text, full: html, text
- renamed mkChange notes, and stripped out stuff that goes into library, this is the frontend to the library
- src/hg/encode/mkChangeNotes/mkChangeNotes - lines changed 57, context: html, text, full: html, text
- src/hg/encode/mkChangeNotes/mkChangeNotes.py - lines changed 681, context: html, text, full: html, text
- modified test to handle changes to mkChangeNotes
- src/hg/encode/mkChangeNotes/tests/mkChangeTest.py - lines changed 4, context: html, text, full: html, text
- separated out library stuff
- python/lib/ucscgenomics/mkChangeNotes.py - lines changed 700, context: html, text, full: html, text
- changes name of variable that I already used, but not in scope or the same context, this fix is onyl for aesthetics
- python/lib/ucscgenomics/mkChangeNotes.py - lines changed 4, context: html, text, full: html, text
- added new functions and some better outputting
- python/lib/ucscgenomics/qa.py - lines changed 142, context: html, text, full: html, text
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