Commits for wong
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v262_base to v263_preview (2012-01-24 to 2012-01-31) v263
- sorting the makefile for cleanliness' sake
- src/hg/makeDb/trackDb/human/hg19/metaDb/beta/makefile - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/public/makefile - lines changed 4, context: html, text, full: html, text
- now prints sorted makefile for metaDb, and more status messages so you know what's going on
- src/hg/encode/encodeQaPrepareRelease/encodeQaPrepareRelease - lines changed 35, context: html, text, full: html, text
- pre-qa fixes for haib tfbs
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.html - lines changed 30, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.ra - lines changed 1, context: html, text, full: html, text
- fixed link to not be going to a directory
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.html - lines changed 1, context: html, text, full: html, text
- made it more searchable
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.html - lines changed 182, context: html, text, full: html, text
- changed over to Needleman-Wunsch for alignment of lists
- python/lib/ucscgenomics/ucscUtils.py - lines changed 27, context: html, text, full: html, text
- src/hg/makeDb/trackDb/cv/public/cv.ra - lines changed 324, context: html, text, full: html, text
- This somehow included cv.ra changes that I don't remember adding in.
Revert "changed over to Needleman-Wunsch for alignment of lists"
This reverts commit c6bd349fa19566d37c1ac02a42865a9031420acb.
- python/lib/ucscgenomics/ucscUtils.py - lines changed 27, context: html, text, full: html, text
- src/hg/makeDb/trackDb/cv/public/cv.ra - lines changed 324, context: html, text, full: html, text
- moved to Needleman-Wunsch for alignment of lists, left in code to convert to Smith-Waterman if this proves to be a bad decision
- python/lib/ucscgenomics/ucscUtils.py - lines changed 27, context: html, text, full: html, text
- adding in lots of replacement files
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra - lines changed 695, context: html, text, full: html, text
- revoking old U87 tracks
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.ra - lines changed 72, context: html, text, full: html, text
- adding in remapped U87 tracks
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.ra - lines changed 96, context: html, text, full: html, text
- added in md5sums
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra - lines changed 29, context: html, text, full: html, text
- revoking the old U87 experiments
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra - lines changed 29, context: html, text, full: html, text
- updated the notes for haib tfbs
- src/hg/makeDb/doc/encodeDccHg19/wgEncodeHaibTfbs.release2.notes - lines changed 261, context: html, text, full: html, text
- adding in makefile for qaEncodeTracks
- src/hg/encode/qaEncodeTracks2/makefile - lines changed 27, context: html, text, full: html, text
- changed clean message
- src/hg/encode/encodeQaInit/makefile - lines changed 1, context: html, text, full: html, text
- changed makefile clean messages to reflect the script itself
- src/hg/encode/encodeQaCheckHgdownloadFiles/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/encode/encodeQaPrepareRelease/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/encode/encodeQaSqlRelease/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/encode/qaTableCheck/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/encode/qaUpdateMetadata/makefile - lines changed 1, context: html, text, full: html, text
- fixed missing period
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.html - lines changed 1, context: html, text, full: html, text
- fixed long labels
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.ra - lines changed 12, context: html, text, full: html, text
- short labels for haib tfbs
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.ra - lines changed 12, context: html, text, full: html, text
- added in release notes
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.html - lines changed 12, context: html, text, full: html, text
- renaming Control to Reverse crosslinks
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra - lines changed 2141, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.ra - lines changed 28, context: html, text, full: html, text
- corrected notes
- src/hg/makeDb/doc/encodeDccHg19/wgEncodeHaibTfbs.release2.notes - lines changed 163, context: html, text, full: html, text
- fixed release notes
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.html - lines changed 7, context: html, text, full: html, text
- updated md5sum
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra - lines changed 2, context: html, text, full: html, text
- expIds and one correction
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra - lines changed 63, context: html, text, full: html, text
- updated notes
- src/hg/makeDb/doc/encodeDccHg19/wgEncodeHaibTfbs.release2.notes - lines changed 12, context: html, text, full: html, text
- update dates on things I missed
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra - lines changed 7, context: html, text, full: html, text
- corrected capitalization of ChIP-seq
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.html - lines changed 7, context: html, text, full: html, text
- correct comment locations - Willy
- src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 336, context: html, text, full: html, text
- Willy's copy was liek an hour old, putting in other changes back
- src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 3, context: html, text, full: html, text
- updating gzipped files wth md5sums of the internal contents
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra - lines changed 1066, context: html, text, full: html, text
- added md5sum repush options for those rare situations where something changes md5sums between releases, but retains the same filename, also added the outputting of an attic files list
- python/lib/ucscgenomics/mkChangeNotes.py - lines changed 8, context: html, text, full: html, text
- attic for single release mode
- python/lib/ucscgenomics/mkChangeNotes.py - lines changed 3, context: html, text, full: html, text
- uppdated md5sums for new files and internal contents of gzips
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromChip.ra - lines changed 119, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromDnase.ra - lines changed 166, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromFaire.ra - lines changed 81, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeOpenChromSynth.ra - lines changed 18, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwDgf.ra - lines changed 106, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwDnase.ra - lines changed 574, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwHistone.ra - lines changed 688, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeUwTfbs.ra - lines changed 421, context: html, text, full: html, text
- many efficiency improvements
- src/hg/encode/encodeMkFilesList/encodeMkFilesList - lines changed 71, context: html, text, full: html, text
- fixed a bug where a link that used to be a file in the history persisted between passes of the history
- src/hg/encode/encodeMkFilesList/encodeMkFilesList - lines changed 8, context: html, text, full: html, text
- changed md5sums of gzips to internal contents
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeSydhTfbs.ra - lines changed 880, context: html, text, full: html, text
- fixed a bug where if it is release 1, and no betaMetaDb.ra exists, the program would crash.
- src/hg/encode/encodeQaPrepareRelease/encodeQaPrepareRelease - lines changed 8, context: html, text, full: html, text
- added in Flo's changes to the description page
- src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.release2.html - lines changed 27, context: html, text, full: html, text
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