Commits for hiram
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v238_preview to v238_base (2010-08-10 to 2010-08-17) v238
- properly clean everything during clean target
- src/hg/blastToPsl/makefile - lines changed 2, context: html, text, full: html, text
- src/hg/genePredHisto/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/genePredSingleCover/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/genePredToMafFrames/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/pslPartition/makefile - lines changed 2, context: html, text, full: html, text
- properly use ../testBinary in test makefiles
- src/hg/genePredHisto/tests/makefile - lines changed 2, context: html, text, full: html, text
- src/hg/genePredSingleCover/tests/makefile - lines changed 1, context: html, text, full: html, text
- fixup test target to use compile and to clean up after test
- src/hg/blastToPsl/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/genePredHisto/makefile - lines changed 13, context: html, text, full: html, text
- src/hg/genePredSingleCover/makefile - lines changed 11, context: html, text, full: html, text
- src/hg/genePredToMafFrames/makefile - lines changed 11, context: html, text, full: html, text
- src/hg/pslPartition/makefile - lines changed 1, context: html, text, full: html, text
- can remove fetchUrlTest at end of tests and during clean
- properly compile target for test target and cleanup after
- src/hg/blastToPsl/makefile - lines changed 8, context: html, text, full: html, text
- src/hg/blastToPsl/tests/makefile - lines changed 2, context: html, text, full: html, text
- point to updateHtml.sh instead of the rsync to fetch htdocs
- src/product/README.install - lines changed 1, context: html, text, full: html, text
- no need to mention a version or date stamp
- remove references to CVS commands
- src/product/scripts/README - lines changed 18, context: html, text, full: html, text
- src/product/scripts/browserEnvironment.txt - lines changed 3, context: html, text, full: html, text
- no longer required in git world
- src/product/scripts/beta.cvsup.pl - lines changed 210, context: html, text, full: html, text
- update to git commands
- src/product/scripts/kentSrcUpdate.sh - lines changed 23, context: html, text, full: html, text
- irrelevant files since changing to git
- src/product/README.cvs.access - lines changed 75, context: html, text, full: html, text
- src/product/ex.cvsup.pl - lines changed 183, context: html, text, full: html, text
- irrelevant file since git introduction
- src/product/README.local.cvs.source - lines changed 146, context: html, text, full: html, text
- irrelevant file since removal of makefile
- src/product/touchVersion.sh - lines changed 10, context: html, text, full: html, text
- can remove the loader symlink after the custom track test is done to keep source tree cleaner
- src/hg/lib/tests/makefile - lines changed 1, context: html, text, full: html, text
- fixup gbdb no longer relevant in 2010
- src/product/ex.fixupGbdb.sh - lines changed 30, context: html, text, full: html, text
- updated to eliminate references to a CDROM
- src/product/README.install - lines changed 157, context: html, text, full: html, text
- the makefile and ex.InstallExample are no longer relevant
- src/product/ex.InstallExample - lines changed 128, context: html, text, full: html, text
- contents have been subsumed into trashCleaner.csh
- src/product/scripts/dbTrashCleaner.sh - lines changed 58, context: html, text, full: html, text
- adding -lcrypto to -lssl
- fixing test target in fixed makefiles
- src/hg/embossToPsl/makefile - lines changed 4, context: html, text, full: html, text
- src/hg/overlapSelect/makefile - lines changed 5, context: html, text, full: html, text
- src/hg/pslCDnaFilter/makefile - lines changed 5, context: html, text, full: html, text
- src/hg/pslDiff/makefile - lines changed 2, context: html, text, full: html, text
- src/hg/pslPartition/makefile - lines changed 2, context: html, text, full: html, text
- src/hg/pslSwap/makefile - lines changed 2, context: html, text, full: html, text
- src/hg/spideyToPsl/makefile - lines changed 3, context: html, text, full: html, text
- fixup permission grant statements to use FILE properly
- src/product/ex.MySQLUserPerms.sh - lines changed 9, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/xenoAli/dynAlign/makefile - lines changed 11, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/updateStsInfo/makefile - lines changed 11, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/uniqSize/makefile - lines changed 7, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/spideyToPsl/makefile - lines changed 6, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/snp/snpValid/makefile - lines changed 11, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- fixing makefiles to not leave garbage around
- src/hg/pslSwap/makefile - lines changed 9, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/pslQuickFilter/makefile - lines changed 10, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/pslPartition/makefile - lines changed 7, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/pslPairs/makefile - lines changed 10, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/pslMap/makefile - lines changed 12, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/pslFilterPrimers/makefile - lines changed 7, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/pslDiff/makefile - lines changed 7, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/pslCDnaFilter/makefile - lines changed 8, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/overlapSelect/makefile - lines changed 8, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- fixing makefiles to not leave garbage around
- src/hg/mouseStuff/simpleChain/makefile - lines changed 6, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/makeDb/hgTomRough/makefile - lines changed 8, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/hgChroms/makefile - lines changed 8, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/fishClones/makefile - lines changed 11, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/estOrient/makefile - lines changed 13, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/hg/embossToPsl/makefile - lines changed 6, context: html, text, full: html, text
- fixing makefiles to not leave garbage around
- src/cdnaAli/g2cCheck/makefile - lines changed 7, context: html, text, full: html, text
- use hAllocConn instead of sqlConnect
- src/hg/lib/wigDataStream.c - lines changed 7, context: html, text, full: html, text
- update note about lifting Ensembl EF2 sequence to sacCer2 coordinates
- src/hg/makeDb/doc/makeEnsembl.txt - lines changed 6, context: html, text, full: html, text
- done with all organisms for v59
- src/hg/makeDb/doc/makeEnsembl.txt - lines changed 39, context: html, text, full: html, text
- finished the ce9 ensGenes
- src/hg/makeDb/doc/makeEnsembl.txt - lines changed 19, context: html, text, full: html, text
- finished with the broken bits
- src/hg/makeDb/doc/makeEnsembl.txt - lines changed 269, context: html, text, full: html, text
- allow scaffold names of ^Scaffold for macEug1
- src/hg/utils/automation/ensGeneScaffolds.pl - lines changed 1, context: html, text, full: html, text
- need 24 characters not just 23 for other name
- longer names for ensembl proteins first seen in mm9
- starting ensembl v59 update
- src/hg/makeDb/doc/makeEnsembl.txt - lines changed 850, context: html, text, full: html, text
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