Commits for kent

v310_preview to v310_preview2 (2014-12-08 to 2014-12-15) v310

• Initial import of encodeDataWarehouse code base to make CIRM data warehouse. Mostly this is just automatic string substitutions of 'cdw' for 'edw', 'CIRM' for 'ENCODE', and so forth. Also got rid of a lot of programs that won't be relevant.
  • src/hg/cirm/cdw/cdwAddAssembly/cdwAddAssembly.c - lines changed 89, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwAddAssembly/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwAddQaContamTarget/cdwAddQaContamTarget.c - lines changed 55, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwAddQaContamTarget/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwAddQaEnrichTarget/cdwAddQaEnrichTarget.c - lines changed 91, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwAddQaEnrichTarget/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwAddSubscriber/cdwAddSubscriber.c - lines changed 93, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwAddSubscriber/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwChangeFormat/cdwChangeFormat.c - lines changed 83, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwChangeFormat/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwCorrectFileTags/cdwCorrectFileTags.c - lines changed 143, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwCorrectFileTags/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwCreateUser/cdwCreateUser.c - lines changed 44, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwCreateUser/makefile - lines changed 19, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwFakeManifestFromSubmit/cdwFakeManifestFromSubmit.c - lines changed 132, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwFakeManifestFromSubmit/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwJob/cdwJob.c - lines changed 159, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwJob/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeContaminationQa/cdwMakeContaminationQa.c - lines changed 198, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeContaminationQa/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeEnrichments/cdwMakeEnrichments.c - lines changed 541, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeEnrichments/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakePairedEndQa/cdwMakePairedEndQa.c - lines changed 306, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakePairedEndQa/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeRepeatQa/cdwMakeRepeatQa.c - lines changed 127, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeRepeatQa/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeReplicateQa/cdwMakeReplicateQa.c - lines changed 525, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeReplicateQa/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeValidFile/cdwMakeValidFile.c - lines changed 730, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeValidFile/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeWigSpotQa/cdwMakeWigSpotQa.c - lines changed 124, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeWigSpotQa/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwQaEvaluate/cdwQaEvaluate.c - lines changed 577, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwQaEvaluate/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwReallyRemoveFiles/cdwReallyRemoveFiles.c - lines changed 142, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwReallyRemoveFiles/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwRetryJob/cdwRetryJob.c - lines changed 100, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwRetryJob/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwRunDaemon/cdwRunDaemon.c - lines changed 336, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwRunDaemon/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwRunOnIds/cdwRunOnIds.c - lines changed 62, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwRunOnIds/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwSubmit/cdwSubmit.c - lines changed 1171, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwSubmit/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwUndeprecate/cdwUndeprecate.c - lines changed 57, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwUndeprecate/makefile - lines changed 4, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebAuthLogin/cdwWebAuthLogin.c - lines changed 110, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebAuthLogin/makefile - lines changed 16, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebAuthLogout/cdwWebAuthLogout.c - lines changed 18, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebAuthLogout/makefile - lines changed 16, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebBrowse/cdwWebBrowse.c - lines changed 486, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebBrowse/makefile - lines changed 16, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebCreateUser/cdwWebCreateUser.c - lines changed 72, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebCreateUser/makefile - lines changed 16, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebDeprecate/cdwWebDeprecate.c - lines changed 209, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebDeprecate/makefile - lines changed 16, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebSubmit/cdwWebSubmit.c - lines changed 352, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwWebSubmit/makefile - lines changed 16, context: html, text, full: html, text
  • src/hg/cirm/cdw/inc/cdw.h - lines changed 2013, context: html, text, full: html, text
  • src/hg/cirm/cdw/inc/cdwBamFileFromRa.h - lines changed 18, context: html, text, full: html, text
  • src/hg/cirm/cdw/inc/cdwFastqFileFromRa.h - lines changed 18, context: html, text, full: html, text
  • src/hg/cirm/cdw/inc/cdwLib.h - lines changed 369, context: html, text, full: html, text
  • src/hg/cirm/cdw/inc/cdwQaWigSpotFromRa.h - lines changed 21, context: html, text, full: html, text
  • src/hg/cirm/cdw/inc/cdwValid.h - lines changed 42, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/cdw.as - lines changed 387, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/cdw.c - lines changed 5145, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/cdw.sql - lines changed 458, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/cdwBamFileFromRa.c - lines changed 210, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/cdwFastqFileFromRa.c - lines changed 309, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/cdwLib.c - lines changed 1693, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/cdwQaWigSpotFromRa.c - lines changed 139, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/cdwValid.c - lines changed 162, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/makefile - lines changed 11, context: html, text, full: html, text
  • src/hg/cirm/cdw/makefile - lines changed 75, context: html, text, full: html, text
• Bumped version number.
  • src/blat/version.doc - lines changed 1, context: html, text, full: html, text
• Bumping version
  • src/inc/genoFind.h - lines changed 1, context: html, text, full: html, text
• Improved comments
  • src/hg/makeDb/doc/encode3/hg38_encode2_dnase1.txt - lines changed 8, context: html, text, full: html, text
• Getting to compile again after moving a .h file.
  • src/hg/cirm/cdw/cdwAddAssembly/cdwAddAssembly.c - lines changed 1, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwAddQaEnrichTarget/cdwAddQaEnrichTarget.c - lines changed 1, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwMakeValidFile/cdwMakeValidFile.c - lines changed 1, context: html, text, full: html, text
• Adding auto-id, and handling text fields.
  • src/hg/cirm/quakeLab/djangoModelToAs/djangoModelToAs.c - lines changed 4, context: html, text, full: html, text