Commits for hiram
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v252_preview to v252_preview2 (2011-05-17 to 2011-05-31) v252
- multiz run complete for 7-way
- src/hg/makeDb/doc/anoCar2.txt - lines changed 12, context: html, text, full: html, text
- adding annotation rows to 7-way maf file
- src/hg/makeDb/doc/anoCar2.txt - lines changed 90, context: html, text, full: html, text
- adding ensGene for upstream table on anoCar2
- src/hg/makeDb/genbank/etc/genbank.conf - lines changed 2, context: html, text, full: html, text
- done with gene annotations on the 7-way maf
- src/hg/makeDb/doc/anoCar2.txt - lines changed 77, context: html, text, full: html, text
- adding 7-way conservation definitions
- src/hg/makeDb/trackDb/lizard/anoCar2/trackDb.ra - lines changed 104, context: html, text, full: html, text
- phylo tree estimate and phastCons done
- src/hg/makeDb/doc/anoCar2.txt - lines changed 369, context: html, text, full: html, text
- phyloP done for 7-way
- src/hg/makeDb/doc/anoCar2.txt - lines changed 184, context: html, text, full: html, text
- description page ready to go for 7-way
- src/hg/makeDb/trackDb/lizard/anoCar2/cons7way.html - lines changed 395, context: html, text, full: html, text
- construct download files for 7-way
- src/hg/makeDb/doc/anoCar2.txt - lines changed 64, context: html, text, full: html, text
- add notes about future names of several chrLG chroms
- src/hg/makeDb/trackDb/lizard/anoCar2/description.html - lines changed 5, context: html, text, full: html, text
- phylo image for anoCar2 7-way
- src/hg/htdocs/images/phylo/anoCar2_7way.png - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
- override matrix for rheMac2
- src/hg/makeDb/trackDb/chimp/trackDb.chainNet.ra - lines changed 1, context: html, text, full: html, text
- 5000 and loose for gasAcu1 summary
- src/hg/makeDb/doc/anoCar2.txt - lines changed 1, context: html, text, full: html, text
- initial contents from makeGenomeDb
- src/hg/makeDb/trackDb/worm/ce10/description.html - lines changed 129, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/ce10/gap.html - lines changed 64, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/ce10/gold.html - lines changed 23, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/ce10/trackDb.ra - lines changed 8, context: html, text, full: html, text
- adding ce10 to the browser
- src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
- small correction to an old command
- src/hg/makeDb/doc/ornAna1.txt - lines changed 1, context: html, text, full: html, text
- initial genome build
- src/hg/makeDb/doc/ce10.txt - lines changed 106, context: html, text, full: html, text
- description.html
- src/hg/makeDb/trackDb/worm/ce10/gap.html - lines changed 70, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/ce10/gold.html - lines changed 30, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/ce10/trackDb.ra - lines changed 2, context: html, text, full: html, text
- update doc to represent actual assembly
- src/hg/makeDb/trackDb/worm/ce10/description.html - lines changed 106, context: html, text, full: html, text
- ready for kluster activity
- src/hg/makeDb/doc/ce10.txt - lines changed 79, context: html, text, full: html, text
- Added ce10 C. elegans WS220
- src/hg/makeDb/genbank/etc/genbank.conf - lines changed 17, context: html, text, full: html, text
- liftOver to ce10 done
- src/hg/makeDb/doc/ce4.txt - lines changed 17, context: html, text, full: html, text
- src/hg/makeDb/doc/ce6.txt - lines changed 18, context: html, text, full: html, text
- src/hg/makeDb/doc/ce9.txt - lines changed 18, context: html, text, full: html, text
- running genbank and set default position
- src/hg/makeDb/doc/ce10.txt - lines changed 73, context: html, text, full: html, text
- ready for genbank run
- src/hg/makeDb/doc/cb4.txt - lines changed 165, context: html, text, full: html, text
- set this as defaultDb in gateway page
- src/hg/makeDb/doc/ce10.txt - lines changed 5, context: html, text, full: html, text
- initial files from makeGenomeDb.pl
- src/hg/makeDb/trackDb/worm/cb4/description.html - lines changed 129, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/cb4/gap.html - lines changed 64, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/cb4/gold.html - lines changed 23, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/cb4/trackDb.ra - lines changed 8, context: html, text, full: html, text
- adding cb4 to the build
- src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
- Added ce10 - C. elegans WS220
- src/hg/makeDb/genbank/etc/align.dbs - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/genbank/etc/hgwdev.dbs - lines changed 1, context: html, text, full: html, text
- adding cb4 C. briggsae WS225
- src/hg/makeDb/genbank/etc/genbank.conf - lines changed 22, context: html, text, full: html, text
- liftover cb3 to cb4 and genbank done for ce10
- src/hg/makeDb/doc/cb3.txt - lines changed 17, context: html, text, full: html, text
- src/hg/makeDb/doc/ce10.txt - lines changed 13, context: html, text, full: html, text
- initial contents
- src/hg/makeDb/doc/cb4.txt - lines changed 50, context: html, text, full: html, text
- WormBase link for ce10
- src/hg/hgTracks/hgTracks.c - lines changed 5, context: html, text, full: html, text
- provide WormBase link for cb4
- src/hg/hgTracks/hgTracks.c - lines changed 5, context: html, text, full: html, text
- default vis for gold and gap
- src/hg/makeDb/trackDb/worm/cb4/trackDb.ra - lines changed 2, context: html, text, full: html, text
- no need to strip chr from cb4 chrom names for WormBase
- src/hg/hgTracks/hgTracks.c - lines changed 1, context: html, text, full: html, text
- changing uses of cgiServerName to better cgiServerNamePort
- src/hg/cartDump/cartDump.c - lines changed 1, context: html, text, full: html, text
- src/hg/hgSession/hgSession.c - lines changed 4, context: html, text, full: html, text
- src/hg/hgTables/galaxy.c - lines changed 1, context: html, text, full: html, text
- src/hg/hgTables/great.c - lines changed 1, context: html, text, full: html, text
- src/hg/hgTables/hgTables.c - lines changed 1, context: html, text, full: html, text
- need a lift file for cb4
- src/hg/makeDb/genbank/etc/genbank.conf - lines changed 1, context: html, text, full: html, text
- initial files from makeGenomeDb.pl
- src/hg/makeDb/trackDb/worm/caeRem4/description.html - lines changed 129, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeRem4/gap.html - lines changed 64, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeRem4/gold.html - lines changed 23, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeRem4/trackDb.ra - lines changed 40, context: html, text, full: html, text
- adding caeRem4 to the build
- src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
- initial makeGenomeDb.pl run
- src/hg/makeDb/doc/caeRem4.txt - lines changed 61, context: html, text, full: html, text
- Updated descriptions to match this release
- src/hg/makeDb/trackDb/worm/caeRem4/description.html - lines changed 65, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeRem4/gap.html - lines changed 56, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeRem4/gold.html - lines changed 40, context: html, text, full: html, text
- Added cb4 - C. briggsae WS220
- src/hg/makeDb/genbank/etc/align.dbs - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/genbank/etc/hgwdev.dbs - lines changed 1, context: html, text, full: html, text
- done with genbank run
- src/hg/makeDb/doc/cb4.txt - lines changed 65, context: html, text, full: html, text
- done with masking
- src/hg/makeDb/doc/caeRem4.txt - lines changed 93, context: html, text, full: html, text
- Added caeRem4 C. remanei WS220
- src/hg/makeDb/genbank/etc/genbank.conf - lines changed 19, context: html, text, full: html, text
- initial files from makeGenomeDb.pl
- src/hg/makeDb/trackDb/worm/caeJap4/description.html - lines changed 129, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeJap4/gap.html - lines changed 64, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeJap4/gold.html - lines changed 23, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeJap4/trackDb.ra - lines changed 40, context: html, text, full: html, text
- initial sequence is ready for genbank run
- src/hg/makeDb/doc/caeJap4.txt - lines changed 231, context: html, text, full: html, text
- running genbank alignments
- src/hg/makeDb/doc/caeRem4.txt - lines changed 76, context: html, text, full: html, text
- adding caeJap4 to the build
- src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeJap4/description.html - lines changed 71, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeJap4/gap.html - lines changed 62, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeJap4/gold.html - lines changed 28, context: html, text, full: html, text
- initial files from makeGenomeDb.pl
- src/hg/makeDb/trackDb/worm/caePb3/description.html - lines changed 129, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caePb3/gap.html - lines changed 64, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caePb3/gold.html - lines changed 23, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caePb3/trackDb.ra - lines changed 40, context: html, text, full: html, text
- Added caeRem4 C. remanei WS220
- src/hg/makeDb/genbank/etc/align.dbs - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/genbank/etc/hgwdev.dbs - lines changed 1, context: html, text, full: html, text
- done with genbank run
- src/hg/makeDb/doc/caeRem4.txt - lines changed 5, context: html, text, full: html, text
- ready for genbank run as soon as kluster node rsync is done
- src/hg/makeDb/doc/caePb3.txt - lines changed 230, context: html, text, full: html, text
- add notes about how the wiki cookie names are constructed
- src/product/ex.hg.conf - lines changed 11, context: html, text, full: html, text
- Added caePb3 C. brenneri WS220
- src/hg/makeDb/genbank/etc/genbank.conf - lines changed 19, context: html, text, full: html, text
- adding caePb3 C. brenneri WS220
- src/hg/makeDb/genbank/etc/align.dbs - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/genbank/etc/hgwdev.dbs - lines changed 1, context: html, text, full: html, text
- done with genbank run
- src/hg/makeDb/doc/caePb3.txt - lines changed 9, context: html, text, full: html, text
- initial source from makeGenomeDb.pl
- src/hg/makeDb/trackDb/worm/caeSp71/description.html - lines changed 129, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeSp71/gap.html - lines changed 64, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeSp71/gold.html - lines changed 23, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeSp71/trackDb.ra - lines changed 40, context: html, text, full: html, text
- adding caeSp71 to the build
- src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
- running RM and TRF
- src/hg/makeDb/doc/caeSp71.txt - lines changed 302, context: html, text, full: html, text
- running RM and TRF
- src/hg/makeDb/doc/caeSp71.txt - lines changed 8, context: html, text, full: html, text
- initial files from makeGenomeDb.pl
- src/hg/makeDb/trackDb/worm/caeSp111/description.html - lines changed 129, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeSp111/gap.html - lines changed 64, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeSp111/gold.html - lines changed 23, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeSp111/trackDb.ra - lines changed 40, context: html, text, full: html, text
- initial files from makeGenomeDb.pl
- src/hg/makeDb/trackDb/worm/caeSp91/description.html - lines changed 129, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeSp91/gap.html - lines changed 64, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeSp91/gold.html - lines changed 23, context: html, text, full: html, text
- src/hg/makeDb/trackDb/worm/caeSp91/trackDb.ra - lines changed 40, context: html, text, full: html, text
- adding caeSp91 and caeSp111
- src/hg/makeDb/trackDb/makefile - lines changed 2, context: html, text, full: html, text
- ready for window masker cleaning
- src/hg/makeDb/doc/caeSp111.txt - lines changed 299, context: html, text, full: html, text
- src/hg/makeDb/doc/caeSp71.txt - lines changed 3, context: html, text, full: html, text
- src/hg/makeDb/doc/caeSp91.txt - lines changed 300, context: html, text, full: html, text
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