Commits for wong
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v260_preview2 to v260_base (2011-11-22 to 2011-12-06) v260
- get grants revomed
- src/hg/encode/encodeLoad/doEncodeLoad.pl - lines changed 28, context: html, text, full: html, text
- src/hg/encode/encodeLoad/doEncodeUnload.pl - lines changed 2, context: html, text, full: html, text
- src/hg/encode/encodeValidate/doEncodeValidate.pl - lines changed 18, context: html, text, full: html, text
- src/hg/utils/automation/Encode.pm - lines changed 6, context: html, text, full: html, text
- fixed revoke message
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwDgf.ra - lines changed 6, context: html, text, full: html, text
- updated betaMdb with dccAccessions.
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeBroadHistone.ra - lines changed 920, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeCshlShortRnaSeq.ra - lines changed 54, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeOpenChromChip.ra - lines changed 271, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeOpenChromDnase.ra - lines changed 328, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeOpenChromFaire.ra - lines changed 179, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeRikenCage.ra - lines changed 101, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeSunyAlbanyTiling.ra - lines changed 8, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeUwAffyExonArray.ra - lines changed 135, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeUwDgf.ra - lines changed 114, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeUwTfbs.ra - lines changed 483, context: html, text, full: html, text
- Revert "updated betaMdb with dccAccessions."
This reverts commit b3f4b90175570e64e2464c758d3b3dbf780769fb.
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeBroadHistone.ra - lines changed 920, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeCshlShortRnaSeq.ra - lines changed 54, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeOpenChromChip.ra - lines changed 271, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeOpenChromDnase.ra - lines changed 328, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeOpenChromFaire.ra - lines changed 179, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeRikenCage.ra - lines changed 101, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeSunyAlbanyTiling.ra - lines changed 8, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeUwAffyExonArray.ra - lines changed 135, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeUwDgf.ra - lines changed 114, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeUwTfbs.ra - lines changed 483, context: html, text, full: html, text
- added line to ignore comments in trackDb.wgEncde.ra
- python/lib/ucscgenomics/track.py - lines changed 2, context: html, text, full: html, text
- added dccAccessions to tracks that are missing them
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeBroadHistone.ra - lines changed 920, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeCshlShortRnaSeq.ra - lines changed 54, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeOpenChromChip.ra - lines changed 270, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeOpenChromDnase.ra - lines changed 328, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeOpenChromFaire.ra - lines changed 179, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeRikenCage.ra - lines changed 102, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeSunyAlbanyTiling.ra - lines changed 8, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeUwAffyExonArray.ra - lines changed 135, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeUwDgf.ra - lines changed 114, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeUwTfbs.ra - lines changed 483, context: html, text, full: html, text
- Merge branch 'removeGetGrants'
- added in line about metadata location to html descriptions
- src/hg/makeDb/trackDb/human/hg19/wgEncodeBroadHistone.html - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeBroadHmm.html - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeDukeAffyExon.html - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeDukeAffyExon.new.html - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.html - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.html - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.html - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromFaire.html - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromSynth.html - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeSydhHistone.html - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeSydhHistone.new.html - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeSydhNsome.html - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeSydhTfbs.html - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDgf.html - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDgf.new.html - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDnase.html - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDnase.new.html - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeUwHistone.html - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeUwHistone.new.html - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeUwTfbs.html - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeUwTfbs.new.html - lines changed 2, context: html, text, full: html, text
- reordered cell lines to be alphabetical
- src/hg/makeDb/trackDb/human/hg19/wgEncodeUwHistone.new.ra - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeUwHistone.ra - lines changed 1, context: html, text, full: html, text
- added development target
- src/hg/utils/automation/makefile - lines changed 3, context: html, text, full: html, text
- restored order of var val pair
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeRikenCage.ra - lines changed 2, context: html, text, full: html, text
- changed to case insensitive sort of vars and added in magic number generation via a temp table in a database
- src/hg/encode/qaUpdateMetadata/qaUpdateMetadata - lines changed 25, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeRikenCage.ra - lines changed 100, context: html, text, full: html, text
- changes for TrackReport
- python/lib/ucscgenomics/mkChangeNotes.py - lines changed 27, context: html, text, full: html, text
- patched in support to ignore folders in the release directory not named supplemental
- python/lib/ucscgenomics/track.py - lines changed 2, context: html, text, full: html, text
- changes the str output of printsize to be just the megabytes with no unit
- python/lib/ucscgenomics/mkChangeNotes.py - lines changed 5, context: html, text, full: html, text
- made it so that tablesize also reprots an int
- python/lib/ucscgenomics/mkChangeNotes.py - lines changed 1, context: html, text, full: html, text
- moving over mkChangeNotes to current one, passed all internal tests, failed expected end to ends (output changed due to bug fixes)
- src/hg/encode/encodeMkChangeNotes/test/CurrentMkChangeNotes.py - lines changed 34, context: html, text, full: html, text
- changed it so that the lines aren't reordered in trackDb.wgEncode.ra by making the arrays be modified in place instead of a copy
- src/hg/encode/encodeQaPrepareRelease/encodeQaPrepareRelease - lines changed 37, context: html, text, full: html, text
- added in line to remove trailing whitespace
- src/hg/encode/encodeQaPrepareRelease/encodeQaPrepareRelease - lines changed 2, context: html, text, full: html, text
- corrected an incorrect exception, should be KeyError, FileError is not defined
- python/lib/ucscgenomics/track.py - lines changed 1, context: html, text, full: html, text
- added bai's in fileName
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwDgf.ra - lines changed 18, context: html, text, full: html, text
- changed CD20+ > CD20+_RO01778
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwDnase.ra - lines changed 5, context: html, text, full: html, text
- first step of rename, renamed to have donor id
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromChip.ra - lines changed 20, context: html, text, full: html, text
- checking trackDb changes for rename
- src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.new.ra - lines changed 2, context: html, text, full: html, text
- restored old trackDb and metaDb entries
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromChip.ra - lines changed 73, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.new.ra - lines changed 9, context: html, text, full: html, text
- fixed metadata to reflect renamed status for old objects
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromChip.ra - lines changed 6, context: html, text, full: html, text
- changed cell line to proper term
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromChip.ra - lines changed 4, context: html, text, full: html, text
- added in close statement for file handle
- src/hg/encode/encodeQaSqlRelease/encodeQaSqlRelease - lines changed 1, context: html, text, full: html, text
- added compilation check to makefile
- src/hg/encode/encodeQaSqlRelease/makefile - lines changed 1, context: html, text, full: html, text
- added md5sums
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwDgf.ra - lines changed 109, context: html, text, full: html, text
- took out the last remnant of tableSuffix in encodeUnload, missed it in the first pass
- src/hg/encode/encodeLoad/doEncodeUnload.pl - lines changed 12, context: html, text, full: html, text
- fixed a bad regex for supplemental
- python/lib/ucscgenomics/track.py - lines changed 1, context: html, text, full: html, text
- Merge branch 'unloadFix'
- rewrite to use library methods
- src/hg/encode/qaUpdateMetadata/qaUpdateMetadata - lines changed 64, context: html, text, full: html, text
- fixed qaUpdateMetaData to use libraries and print back out a beta.ra with the magic number, and rebalanced whitespace
- src/hg/encode/qaUpdateMetadata/qaUpdateMetadata - lines changed 43, context: html, text, full: html, text
- rebalanced whitespace to use 4 spaces instead of tab
- python/lib/ucscgenomics/ra.py - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
- added in willy's changed to the ra.py library, only went over changeSummary and updateDiffFilter with him so far, the rest still need to be looked over
- python/lib/ucscgenomics/ra.py - lines changed 190, context: html, text, full: html, text
- changed RaDiff to use the new ra.py library methods
- src/hg/encode/qaRaDiff/qaRaDiff - lines changed 25, context: html, text, full: html, text
- added in bai to fileName
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwTfbs.ra - lines changed 2, context: html, text, full: html, text
- fixed a spelling error
- src/hg/makeDb/trackDb/human/hg19/wgEncodeCaltechRnaSeq.new.html - lines changed 2, context: html, text, full: html, text
- made the cell lines missing inputs attic files
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwTfbs.ra - lines changed 62, context: html, text, full: html, text
- put the cell lines without inputs as attic files
- src/hg/makeDb/doc/encodeDccHg19/wgEncodeUwTfbs.release2.notes - lines changed 80, context: html, text, full: html, text
- forgot README.txt
- src/hg/makeDb/doc/encodeDccHg19/wgEncodeUwTfbs.release2.notes - lines changed 5, context: html, text, full: html, text
- revokeing HEY1 tracks in trackDb, this will leak out at the the of the week.
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.ra - lines changed 64, context: html, text, full: html, text
- Merge branch 'raWilly'
- had the comparison backwards
- src/hg/encode/qaRaDiff/qaRaDiff - lines changed 1, context: html, text, full: html, text
- the K562/BCL3 objects need to be revoke also
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.ra - lines changed 28, context: html, text, full: html, text
- revoking HEY1 and K562/BCL3 experiments in beta only
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/wgEncodeHaibTfbs.ra - lines changed 25, context: html, text, full: html, text
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