Commits for braney

v336_preview to v336_preview2 (2016-07-11 to 2016-07-18) v336

11e45667d4e291b3038ccda729a1cdf5bcaf004a Mon Jul 11 15:46:54 2016 -0700

• incorporate htslib in kent src, remove USE_BAM, USE_SAMTABIX, USE_TABIX
  defines, modify a bunch of makefiles to include kentSrc variable
  pointing to top of the tree.
  
  • src/ai/growNet/makefile - lines changed 1, context: html, text, full: html, text
  • src/ai/letterChain/makefile - lines changed 1, context: html, text, full: html, text
  • src/ai/pairCompress/makefile - lines changed 1, context: html, text, full: html, text
  • src/ai/paraFlow/aceTools/makefile - lines changed 1, context: html, text, full: html, text
  • src/ai/paraFlow/compiler/makefile - lines changed 1, context: html, text, full: html, text
  • src/ai/paraFlow/makefile - lines changed 1, context: html, text, full: html, text
  • src/ai/paraFlow/runAsm/makefile - lines changed 1, context: html, text, full: html, text
  • src/ai/paraFlow/runtime/makefile - lines changed 1, context: html, text, full: html, text
  • src/ai/paraFlow/testProg/makefile - lines changed 1, context: html, text, full: html, text
  • src/ai/wordChain/makefile - lines changed 1, context: html, text, full: html, text
  • src/blat/makefile - lines changed 1, context: html, text, full: html, text
  • src/blatTheory/makefile - lines changed 1, context: html, text, full: html, text
  • src/blatz/makefile - lines changed 1, context: html, text, full: html, text
  • src/cbAli/makefile - lines changed 1, context: html, text, full: html, text
  • src/cdnaAli/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/fuse/makefile - lines changed 1, context: html, text, full: html, text
  • src/fuzzyFind/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/affyGnf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/affyTransciptome/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/agpMergeChromScaf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/agpSangerUnfinished/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/agpTweak/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/altGraph/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/altSplice/affySplice/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/altSplice/affySplice/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/altSplice/agxToXml/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/altSplice/altSplice/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/altSplice/altSplice/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/altSplice/axtCountBeds/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/altSplice/exonWalk/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/altSplice/filterEdges/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/altSplice/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/autoSql/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/autoXml/t/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/baseMask/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/baseMask/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/bedIntersect/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/bedOverlap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/bedThickOnly/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/bioImage/bioImageLoad/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/bioImage/hgBioImage/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/bioImage/knownToBioImage/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/bioImage/loadMahoney/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/blastToPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/blastToPsl/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/cartDump/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/cartReset/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ccTrack/bedToBinDex/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/cgiExample/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/checkTableCoords/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/chimpStuff/chimpChromContigAgp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/chimpStuff/chimpHiQualDiffs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/chimpStuff/chimpSuperQuals/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/cirm/cdw/cdwCreateUser/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/cdwLib.c - lines changed 12, context: html, text, full: html, text
  • src/hg/cirm/cdw/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/cirm/cdw/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/cirm/cdw/wrangle/kallistoToMatrix/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/das/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/dnaGene/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/embossToPsl/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/antibodyWikiParser/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/cellTypeParser/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/converters/pairedTagToBed12/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/converters/tagToBed12/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/docId/docIdReport/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/docId/docIdSubmitDir/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/docId/docIdTidy/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/docId/docIdView/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/docId/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeCharts/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeCvTerm/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeDownloadReadme/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeDownloadsPage/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeExp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeExp/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeLoad/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeMdbToDdf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeMergeReplicates/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeMergeReplicatesBatch/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeMkChangeNotes/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeMkFilesList/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeMkGeoPkg/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodePatchTdb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeQaCheckHgdownloadFiles/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeQaInit/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/encodeRenameObj/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeStatus/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeValidate/config/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeValidate/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/encodeValidate/test/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/getTrackReferences/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/hgEncodeApi/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/hgEncodeDataVersions/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/hgEncodeScheduler/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/hgEncodeVocab/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/ldGencodeIntron/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/metaCheck/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/metaCollect/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/metaRename/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/mkEncodeFrameset/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/paraMd5sum/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/qaDateUnrestrictedCheck/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/qaEncodeTracks2/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
  • src/hg/encode/raDiff/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/raMerge/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/regionAgp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/regionOrtho/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode/validateCv/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/eap/eapSchedule/eapSchedule.c - lines changed 10, context: html, text, full: html, text
  • src/hg/encode3/eap/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/eap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/encodeDataWarehouse/edwCreateUser/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/encodeDataWarehouse/lib/edwLib.c - lines changed 12, context: html, text, full: html, text
  • src/hg/encode3/encodeDataWarehouse/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/encodeDataWarehouse/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/encodeDataWarehouse/utils/edwBamFilter/edwBamFilter.c - lines changed 12, context: html, text, full: html, text
  • src/hg/encode3/encodeDataWarehouse/utils/edwBamRemoveChrom/edwBamRemoveChrom.c - lines changed 12, context: html, text, full: html, text
  • src/hg/encode3/encodeDataWarehouse/utils/edwBamStats/edwBamStats.c - lines changed 27, context: html, text, full: html, text
  • src/hg/encode3/encodeDataWarehouse/utils/edwSamRepeatAnalysis/edwSamRepeatAnalysis.c - lines changed 8, context: html, text, full: html, text
  • src/hg/encode3/encodeDataWarehouse/utils/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encode2BedDoctor/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encode2BedPlusDoctor/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encode2CmpMd5/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encode2ExpDumpFlat/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encode2FlattenFastqSubdirs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encode2GffDoctor/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encode2MakeEncode3/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encode2Manifest/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encode2Md5UpdateManifest/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encode2Meta/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encode2MetaPatchRenamed/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encodeCvToDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/encodeExpToCvDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/importEncode2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/encode3/validateFiles/validateFiles.c - lines changed 19, context: html, text, full: html, text
  • src/hg/estOrient/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/extractPslForLfs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gbGetEntries/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/geneBounds/averagExp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/geneBounds/clusterGenes/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/geneBounds/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/geneBounds/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/geneOverlap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/genePredHisto/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/genePredSingleCover/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/genePredToGtf/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/genePredToMafFrames/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/genePredToMrna/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/geoIp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/getallpep/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/barger/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/checkDbSync/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/checkGoldDupes/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/checkN/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/checkNt/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/checkOut/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/checkPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/checkQa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/checkYbr/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/cmParse/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/cmpMap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/codJobs/jabba/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/conJobs/cdnaOnOoJobs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/conJobs/patJobs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/conJobs/pslGenoJobs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/conJobs/pslOoJobs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/conJobs/pslSelfJobs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/conJobs/repMaskJobs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/conJobs/rmskOoJobs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/g2gOverlap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/g2gSeqOverlap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/gapper/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/goldToAgp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/makePai/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/mendMap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/mm/checkEnds/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/mm/mm/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/mm/mmTestSet/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/mm/ooMapMend/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ntGoldGl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooChains/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooCloneEnds/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooCloneInfo/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooCloneOverlaps/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooCloneSizes/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooCloneSpan/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooGreedy/bak/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooGreedy/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooLiftSpec/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooNtInput/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooSplitFins/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooTester/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/ooWeedZero/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/pairedReads/ppAnalyse/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/pairedReads/ppSanger/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/pairedReads/ppStats/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/pairedReads/ppWashU/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/pairedReads/ppWhitehead/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/psLayout/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gigAssembler/qaGold/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gisaid/gisaidSample/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gisaid/gisaidSubj/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gisaid/gisaidTable/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gisaid/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/gsIdXref/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/gsidAaMsa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/gsidGetConsensus/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/gsidMember/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/gsidMsa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/gsidMsaToTab/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/gsidPbGateway/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/gsidPosSelect/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/gsidSubj/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/gsidSubj3/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/gsidTable/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/pbGsid/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/gsid/pwdtest/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgApi/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgBatch/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgBeacon/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgBlat/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgBlatTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgCert/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgChooseDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgConvert/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgCoordConv/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgCustom/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgFileSearch/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgFileUi/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgGateway/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgGene/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgGeneBands/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgGeneList/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgGeneRing/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgGenome/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgGetAnn/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgGtexApi/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgHubConnect/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgIntegrator/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgLiftOver/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgLogin/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgMenubar/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgMirror/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgNotAvail/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgNotYet/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgPal/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgPcr/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgPublicSessions/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgSession/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgSuggest/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTables/bam.c - lines changed 8, context: html, text, full: html, text
  • src/hg/hgTables/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTrackUi/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/bamTrack.c - lines changed 48, context: html, text, full: html, text
  • src/hg/hgTracks/cds.c - lines changed 4, context: html, text, full: html, text
  • src/hg/hgTracks/cds.h - lines changed 4, context: html, text, full: html, text
  • src/hg/hgTracks/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/makefile.hgRenderTracks - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/vcfTrack.c - lines changed 28, context: html, text, full: html, text
  • src/hg/hgUserSuggestion/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgVai/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgVarAnnogrator/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgc/bamClick.c - lines changed 6, context: html, text, full: html, text
  • src/hg/hgc/hgc.c - lines changed 8, context: html, text, full: html, text
  • src/hg/hgc/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/hgc/vcfClick.c - lines changed 2, context: html, text, full: html, text
  • src/hg/hgcentralTidy/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/trackDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/htdocs/style/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/inc/hgBam.h - lines changed 4, context: html, text, full: html, text
  • src/hg/intronSizes/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/js/external/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/js/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/js/model/hgChooseDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/js/model/hgIntegrator/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/js/model/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/js/model/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/js/react/hgChooseDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/js/react/hgIntegrator/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/js/react/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/js/react/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/js/react/mixins/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/lib/customAdjacency.c - lines changed 2, context: html, text, full: html, text
  • src/hg/lib/customFactory.c - lines changed 10, context: html, text, full: html, text
  • src/hg/lib/encode/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/lib/hgBam.c - lines changed 75, context: html, text, full: html, text
  • src/hg/lib/hui.c - lines changed 4, context: html, text, full: html, text
  • src/hg/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/lib/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/liftAcross/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/liftAgp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/liftOver/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/liftOver/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/liftUp/test/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/logCrawl/accessLogFilter/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/logCrawl/accessLogMerge/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/logCrawl/accessLogSort/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/logCrawl/accessLogWigs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/logCrawl/crawlForHogs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/logCrawl/crawlForPosAndTime/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/logCrawl/encodeUserDbCrawl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/logCrawl/hgAccessCrawl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/logCrawl/sessionDbCrawl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/logCrawl/ticksToWig/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/ucscGenes/hg38.ucscGenes17.sh - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/align/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/ccds/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/copy/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/dbload/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/download/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/extFileUpdate/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/gbConf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/gbGetSeqs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/gbSanity/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/lsSnpPdb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/process/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/process/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/refSeqCheck/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/repair/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/src/selectWithPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/tests/gbFaCheck/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/tests/index/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/tests/subset/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgAar/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgBedsToBedExps/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgCalStat/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgCgiData/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgCutters/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgGcPercent/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgGetKgUrls/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgGetNrOmimGene/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgGoldGapGl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgLoadAxt/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgLoadBed/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgLoadCdsEvidence/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgLoadMaf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgLoadMaf/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgLoadWiggle/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgPar/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgPar/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgRgdParsePathwayObo/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/hgTomRough/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/htTpf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/makeLoChain/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/mdbUpdate/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/mdbUpdate/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/ensembl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/schema/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/simpleGap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDbPatch/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeSeqs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/monitor/cacti/cactiSine/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/afsCombine/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/aliFragScore/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/axtBestNear/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/axtChain/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/axtSomeRecords/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/axtToMaf/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/axtToPsl/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/blastzPaper/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/blastzScripts/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/chainIndex/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/chainInfo/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/chainOverlap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/chainScore/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/chainStitch/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/chainToPsl/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/correctEst/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/exonMap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/ggcPic/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/knownVsBlat/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/lavToAxt/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/lavToPsl/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/mafRanges/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/mafToClustalw/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/mafToFa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/mafToXmfa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/netContigs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/netToAxt/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/whyConserved/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mouseStuff/xmfaToMaf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/mrnaToGene/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/nci60/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/near/hgExpDistance/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/near/hgNear/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/near/hgNetDist/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/near/hgZfishEnsXRef/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/addChrPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/addMhcClones/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/addTopoToPrimers/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/affyAllExonGSColumn/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/agpAddCtgNamesAndGaps/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/agpNotInf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/agpVsMap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/bargeVsMap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/bed15To3Col/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/bedFirstCodingExonSize/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/blatFilter/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/bridgeDif/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/bwTestRead/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/cJoinX/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/cacheMergedRanges/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/cartSim/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/cartSimNoInsert/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/chromPosLookup/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/chromToPos/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/clonePos/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/clonesInAgp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/clumpEst3/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/cmpOverlaps/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/codAbsAffyQuery/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/compilerError/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/createScaffoldsAgp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/doEvoFold/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/doEvoFoldV2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/doOmimDisorders/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/doRgdGene2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/doRgdGene2UniProt/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/doRgdGene2Xref/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/dupeFoo/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/dupedInTable/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/evalEndOverlaps/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/evalEnds/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/faFiltMasked/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/faTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/fakeBedGraph/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/fakeChromGraph/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/fakeHomozygousity/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/fakeLinkage/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/fakeSeqDiffs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/findContigsWithClones/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/findToFixBedGraphLimits/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/findToFixBedGraphViewLimits/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/fixBlastTrack/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/fixEnsGtf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/fixGdup/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/flagMhcClones/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/freen/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/getHumanBrainRna/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/getRgdGeneCds/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/hgFreen/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/howBadNt/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/jingTestFoo/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/joinToPatch/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/kgName/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/labSheet/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/makeOrthoAtgTable/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/makeTrackDbTagVals/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/makeTrackDbTypeTags/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/mhcToNt/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/missingTable/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/musAliAt/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/newClones/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/oo21Nts/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/padFile/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/parseOmimDisorder/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/patchDir/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/patchNtAgp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/patchToAgp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/protDat/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/pslCut/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/raPriority/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/randomEst/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/rangeGraph/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/rcvs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/rmDupCol1/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/rmFromFinf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/roundNewViewLimitsInRa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/sangPairs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/seqFromPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/somePsls/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/spSize/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/spanRaft/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/splitNcbiFa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tdbRewriteAddReplaces/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tdbRewriteReduceReplaces/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tdbRewriteRemoveUnused/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tdbRewriteSortTags/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tdbRewriteSubtrackToParent/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tdbRewriteViewsToSubtracks/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tdbRewriteViewsToSubtracks1/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tempLift/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tempLower/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/testBb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/testCart/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/testIndex/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/testIntersect/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/testIxx/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/testTableExists/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/testXap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tetDensity/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tetFilter/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/timeGifPng/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/trimFosmids/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/tryNewColorOverlay/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/weedKnownBlastTab/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/weedTab/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/wgEncodeRegGenRa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/oneShot/wgEncodeRegTfbsDedupeHelp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/orthoMap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pdbSP/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/perf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/phyloGif/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/poster/finPoster/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/poster/foldDb/checkDupe/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/poster/foldDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/poster/foldGfx/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/blastRecipBest/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/dv2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/fixAgp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/fixMd/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/gadPos/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/getInterProFa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/hmmPfamToTab/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgAliasKgXref/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgAliasM/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgAliasP/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgAliasRefseq/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgAttachKegg/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgBestMrna/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgBestMrna2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgBestRef2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgBioCyc0/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgBioCyc1/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgCheck/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgCheck2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgGetCds/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgGetPep/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgPepMrna/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgPick/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgPick0/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgProtAlias/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgProtAliasNCBI/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgPutBack/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgSelect/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgUniq/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgXref/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/kgXref2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/omimCheckAv/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/omimParseAv/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/omimParseRec/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/pbCalDist/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/pbCalDistGlobal/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/pbCalPi/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/pbCalResStd/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/pbCalResStdGlobal/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/pbGateway/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/pbGlobal/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/pbHgnc/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/pbTracks/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/pfamToGoRdf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/pfamXref/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/rmKGPepMrna/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/scopCollapse/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spDbAddVarSplice/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spLoadPsiBlast/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spLoadRankProp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spOrganism/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spToDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spToProteins/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spToProteinsVar/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spToSpXref2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spXref3/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spm3/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spm6/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/protein/spm7/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslAnal/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslCDnaFilter/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslCDnaFilter/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslCDnaGenomeMatch/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslCluster/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslCrudeCmp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslDiff/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslDiff/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslDist/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslFilterBadCdna/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslHisto/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslMaxMap/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslOneTwo/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslPartition/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslPseudo/checkExp/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslPseudo/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslPseudo/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslSelect/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslSomeRecords/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslSplit/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslStats/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslSwap/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslToBed/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslToFa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/pslToPileup/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/qa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/qaAgpToQacIdx/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/qaPushQ/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/qacAddGapIdx/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/qacIndex/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/raSort/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/randomPlacement/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/faToMaf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/mafBedSubset/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/mafBreak/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/mafFastFrags/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/mafIndex/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/mafOrtholog/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/mafSplit/test/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/mafStats/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/mafToAnc/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/mafToProtein/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/multizzy/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/segExpandToAnchors/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/segInfo/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ratStuff/segSplitPairwise/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/companion/regCompanion5C/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/companion/regCompanionCalcBedGraphNorm/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/companion/regCompanionChia/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/companion/regCompanionCorrelateEnhancerAndExpression/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/companion/regCompanionEnhProCellSpecificPairs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/companion/regCompanionEntropy/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/companion/regCompanionGraphVsFixedPoints/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/companion/regCompanionHistoneBox/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/companion/regCompanionPickEnhancers/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/regBeadPos/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/regBedStats/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/regChromiaMergeWindows/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/regCluster/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/regClusterAttachMetadataToTableOfTables/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/regClusterBedExpCfg/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/regClusterMakeTableOfTables/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/regClusterTreeCells/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/regulate/regStartSampleEmbl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/rnaStructure/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/rtdbWebUpdate/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/sage/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/sageVisCGI/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/secure/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/snp/details/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/snp/findSnpClusters/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/snp/fixedDiffs/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/snp/pbToAlleleCounts/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/snp/snpLoad/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/snp/snpMask/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/snp/tajD/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/spideyToPsl/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/splignToPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/test/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/tutorial/affyVsIlluminaCommon/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/tutorial/bigGene/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/tutorial/cgiAlign/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/tutorial/cgiPicture/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/tutorial/cgiTaxon/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/txCds/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/txCds/txCdsRedoUniprotPicks/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/txGene/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/txGene/txGenbankData/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/txGene/txGeneAddOldUnmapped/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/txGene/txGeneExplainUpdate2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/txGene/txGeneValidation/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/txGraph/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/txPaper/txGeneBakeOff/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/txPaper/txPaperPfam/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/txPaper/txPaperScop/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ultras/plateOfPrimers/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ultras/regionToPrimer3/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ultras/sqlAddCol/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ultras/ultraPcrRegions/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/ultras/ultraPlateau/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/useCount/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/agpCondense/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/automation/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/bedExtendRanges/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/bedMergeExpData/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/bedMergeOverlappingBlocks/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/bedRandom/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/bedToPsl/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/cageSingleTrack/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/coloredExonToBed/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/findCutters/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/fiveCToBed/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/genePredFilter/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/geoMirrorNode/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/gff3ToPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/gff3ToPsl/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/gffToBed/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/gtfToGenePred/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/gtfToGenePred/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/hubCheck/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/liftUpBedFromTable/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/makeTableList/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/makeTrackIndex/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/mdbQuery/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/mutationClassifier/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/oligoMatch/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/otto/omim/doOmimAv/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/otto/omim/doOmimGene2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/otto/omim/doOmimGeneSymbols/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/otto/omim/doOmimLocation/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/overlapSelect/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/pslMap/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/randFrag/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/reTraceUtils/reTraceFixMaf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/refSeqGet/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/refSeqGet/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/repeatSelect/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/rgdGeneXref2/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/ruby/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/sqlPerf/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/tdbQuery/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/transMapPslToGenePred/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/wigAsciiAverageOverBed/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/gensat/gensatFixFull/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/gensat/gensatFtpImages/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/gensat/gensatFtpList/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/gensat/gensatImageDownload/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/gensat/gensatRandomXml/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/gensat/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/gensat/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/gensat/vgLoadGensat/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/hgVisiGene/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/jackson/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/jackson/mysqlEscape/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/vgChangeContributors/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/vgGetText/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/vgLoadAllen/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/vgLoadJax/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/vgLoadMahoney/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/vgLoadNibb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/vgPatchJax/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/vgPrepImage/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/vgProbeTrack/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/vgRemoveSubmission/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/visiGeneLoad/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/visiGeneSearch/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/visiGene/visiGeneTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/wikiPlot/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/zfishBacClonesandSts/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/zoo/alignToPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/zoo/pslToFa/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/zoo/zooLib/makefile - lines changed 1, context: html, text, full: html, text
  • src/htslib/INSTALL - lines changed 102, context: html, text, full: html, text
  • src/htslib/LICENSE - lines changed 69, context: html, text, full: html, text
  • src/htslib/Makefile - lines changed 427, context: html, text, full: html, text
  • src/htslib/NEWS - lines changed 74, context: html, text, full: html, text
  • src/htslib/README - lines changed 5, context: html, text, full: html, text
  • src/htslib/bgzf.c - lines changed 1127, context: html, text, full: html, text
  • src/htslib/bgzip.c - lines changed 297, context: html, text, full: html, text
  • src/htslib/config.h - lines changed 28, context: html, text, full: html, text
  • src/htslib/config.h.in - lines changed 27, context: html, text, full: html, text
  • src/htslib/config.log - lines changed 418, context: html, text, full: html, text
  • src/htslib/config.mk - lines changed 111, context: html, text, full: html, text
  • src/htslib/config.mk.in - lines changed 111, context: html, text, full: html, text
  • src/htslib/config.status - lines changed 1003, context: html, text, full: html, text
  • src/htslib/configure - lines changed 5267, context: html, text, full: html, text
  • src/htslib/configure.ac - lines changed 192, context: html, text, full: html, text
  • src/htslib/cram/cram.h - lines changed 61, context: html, text, full: html, text
  • src/htslib/cram/cram_codecs.c - lines changed 1949, context: html, text, full: html, text
  • src/htslib/cram/cram_codecs.h - lines changed 194, context: html, text, full: html, text
  • src/htslib/cram/cram_decode.c - lines changed 3143, context: html, text, full: html, text
  • src/htslib/cram/cram_decode.h - lines changed 112, context: html, text, full: html, text
  • src/htslib/cram/cram_encode.c - lines changed 3094, context: html, text, full: html, text
  • src/htslib/cram/cram_encode.h - lines changed 105, context: html, text, full: html, text
  • src/htslib/cram/cram_external.c - lines changed 377, context: html, text, full: html, text
  • src/htslib/cram/cram_index.c - lines changed 583, context: html, text, full: html, text
  • src/htslib/cram/cram_index.h - lines changed 99, context: html, text, full: html, text
  • src/htslib/cram/cram_io.c - lines changed 4599, context: html, text, full: html, text
  • src/htslib/cram/cram_io.c.00 - lines changed 4611, context: html, text, full: html, text
  • src/htslib/cram/cram_io.h - lines changed 669, context: html, text, full: html, text
  • src/htslib/cram/cram_samtools.c - lines changed 149, context: html, text, full: html, text
  • src/htslib/cram/cram_samtools.h - lines changed 105, context: html, text, full: html, text
  • src/htslib/cram/cram_stats.c - lines changed 448, context: html, text, full: html, text
  • src/htslib/cram/cram_stats.h - lines changed 59, context: html, text, full: html, text
  • src/htslib/cram/cram_structs.h - lines changed 819, context: html, text, full: html, text
  • src/htslib/cram/files.c - lines changed 74, context: html, text, full: html, text
  • src/htslib/cram/mFILE.c - lines changed 694, context: html, text, full: html, text
  • src/htslib/cram/mFILE.h - lines changed 89, context: html, text, full: html, text
  • src/htslib/cram/misc.h - lines changed 110, context: html, text, full: html, text
  • src/htslib/cram/open_trace_file.c - lines changed 414, context: html, text, full: html, text
  • src/htslib/cram/open_trace_file.h - lines changed 125, context: html, text, full: html, text
  • src/htslib/cram/os.h - lines changed 308, context: html, text, full: html, text
  • src/htslib/cram/pooled_alloc.c - lines changed 188, context: html, text, full: html, text
  • src/htslib/cram/pooled_alloc.h - lines changed 64, context: html, text, full: html, text
  • src/htslib/cram/rANS_byte.h - lines changed 336, context: html, text, full: html, text
  • src/htslib/cram/rANS_static.c - lines changed 868, context: html, text, full: html, text
  • src/htslib/cram/rANS_static.h - lines changed 51, context: html, text, full: html, text
  • src/htslib/cram/sam_header.c - lines changed 1268, context: html, text, full: html, text
  • src/htslib/cram/sam_header.h - lines changed 459, context: html, text, full: html, text
  • src/htslib/cram/string_alloc.c - lines changed 155, context: html, text, full: html, text
  • src/htslib/cram/string_alloc.h - lines changed 68, context: html, text, full: html, text
  • src/htslib/cram/thread_pool.c - lines changed 813, context: html, text, full: html, text
  • src/htslib/cram/thread_pool.h - lines changed 218, context: html, text, full: html, text
  • src/htslib/cram/vlen.c - lines changed 430, context: html, text, full: html, text
  • src/htslib/cram/vlen.h - lines changed 48, context: html, text, full: html, text
  • src/htslib/cram/zfio.c - lines changed 183, context: html, text, full: html, text
  • src/htslib/cram/zfio.h - lines changed 62, context: html, text, full: html, text
  • src/htslib/faidx.5 - lines changed 146, context: html, text, full: html, text
  • src/htslib/faidx.c - lines changed 484, context: html, text, full: html, text
  • src/htslib/hfile.c - lines changed 750, context: html, text, full: html, text
  • src/htslib/hfile_internal.h - lines changed 139, context: html, text, full: html, text
  • src/htslib/hfile_irods.c - lines changed 259, context: html, text, full: html, text
  • src/htslib/hfile_libcurl.c - lines changed 919, context: html, text, full: html, text
  • src/htslib/hfile_net.c - lines changed 113, context: html, text, full: html, text
  • src/htslib/hts.c - lines changed 2061, context: html, text, full: html, text
  • src/htslib/hts_internal.h - lines changed 69, context: html, text, full: html, text
  • src/htslib/htsfile.1 - lines changed 75, context: html, text, full: html, text
  • src/htslib/htsfile.c - lines changed 234, context: html, text, full: html, text
  • src/htslib/htslib.mk - lines changed 163, context: html, text, full: html, text
  • src/htslib/htslib.pc.in - lines changed 10, context: html, text, full: html, text
  • src/htslib/htslib/bgzf.h - lines changed 329, context: html, text, full: html, text
  • src/htslib/htslib/cram.h - lines changed 492, context: html, text, full: html, text
  • src/htslib/htslib/faidx.h - lines changed 137, context: html, text, full: html, text
  • src/htslib/htslib/hfile.h - lines changed 215, context: html, text, full: html, text
  • src/htslib/htslib/hts.h - lines changed 642, context: html, text, full: html, text
  • src/htslib/htslib/hts_defs.h - lines changed 72, context: html, text, full: html, text
  • src/htslib/htslib/kbitset.h - lines changed 160, context: html, text, full: html, text
  • src/htslib/htslib/kfunc.h - lines changed 83, context: html, text, full: html, text
  • src/htslib/htslib/khash.h - lines changed 627, context: html, text, full: html, text
  • src/htslib/htslib/khash_str2int.h - lines changed 133, context: html, text, full: html, text
  • src/htslib/htslib/klist.h - lines changed 135, context: html, text, full: html, text
  • src/htslib/htslib/knetfile.h - lines changed 114, context: html, text, full: html, text
  • src/htslib/htslib/kseq.h - lines changed 253, context: html, text, full: html, text
  • src/htslib/htslib/ksort.h - lines changed 285, context: html, text, full: html, text
  • src/htslib/htslib/kstring.h - lines changed 277, context: html, text, full: html, text
  • src/htslib/htslib/regidx.h - lines changed 154, context: html, text, full: html, text
  • src/htslib/htslib/sam.h - lines changed 454, context: html, text, full: html, text
  • src/htslib/htslib/synced_bcf_reader.h - lines changed 302, context: html, text, full: html, text
  • src/htslib/htslib/tbx.h - lines changed 79, context: html, text, full: html, text
  • src/htslib/htslib/vcf.h - lines changed 907, context: html, text, full: html, text
  • src/htslib/htslib/vcf_sweep.h - lines changed 47, context: html, text, full: html, text
  • src/htslib/htslib/vcfutils.h - lines changed 134, context: html, text, full: html, text
  • src/htslib/htslib_vars.mk - lines changed 49, context: html, text, full: html, text
  • src/htslib/kfunc.c - lines changed 280, context: html, text, full: html, text
  • src/htslib/knetfile.c - lines changed 679, context: html, text, full: html, text
  • src/htslib/kstring.c - lines changed 274, context: html, text, full: html, text
  • src/htslib/md5.c - lines changed 386, context: html, text, full: html, text
  • src/htslib/plugin.c - lines changed 171, context: html, text, full: html, text
  • src/htslib/regidx.c - lines changed 340, context: html, text, full: html, text
  • src/htslib/sam.5 - lines changed 68, context: html, text, full: html, text
  • src/htslib/sam.c - lines changed 2061, context: html, text, full: html, text
  • src/htslib/synced_bcf_reader.c - lines changed 1284, context: html, text, full: html, text
  • src/htslib/tabix.1 - lines changed 177, context: html, text, full: html, text
  • src/htslib/tabix.c - lines changed 538, context: html, text, full: html, text
  • src/htslib/tbx.c - lines changed 334, context: html, text, full: html, text
  • src/htslib/test/auxf#values.sam - lines changed 5, context: html, text, full: html, text
  • src/htslib/test/auxf.fa - lines changed 2, context: html, text, full: html, text
  • src/htslib/test/auxf.fa.fai - lines changed 1, context: html, text, full: html, text
  • src/htslib/test/c1#bounds.sam - lines changed 4, context: html, text, full: html, text
  • src/htslib/test/c1#clip.sam - lines changed 8, context: html, text, full: html, text
  • src/htslib/test/c1#noseq.sam - lines changed 10, context: html, text, full: html, text
  • src/htslib/test/c1#pad1.sam - lines changed 10, context: html, text, full: html, text
  • src/htslib/test/c1#pad2.sam - lines changed 14, context: html, text, full: html, text
  • src/htslib/test/c1#pad3.sam - lines changed 14, context: html, text, full: html, text
  • src/htslib/test/c1#unknown.sam - lines changed 9, context: html, text, full: html, text
  • src/htslib/test/c1.fa - lines changed 2, context: html, text, full: html, text
  • src/htslib/test/c1.fa.fai - lines changed 1, context: html, text, full: html, text
  • src/htslib/test/c2#pad.sam - lines changed 26, context: html, text, full: html, text
  • src/htslib/test/c2.fa - lines changed 2, context: html, text, full: html, text
  • src/htslib/test/c2.fa.fai - lines changed 1, context: html, text, full: html, text
  • src/htslib/test/ce#1.sam - lines changed 2, context: html, text, full: html, text
  • src/htslib/test/ce#2.sam - lines changed 3, context: html, text, full: html, text
  • src/htslib/test/ce#5.sam - lines changed 11, context: html, text, full: html, text
  • src/htslib/test/ce#5b.sam - lines changed 12, context: html, text, full: html, text
  • src/htslib/test/ce#large_seq.sam - lines changed 3, context: html, text, full: html, text
  • src/htslib/test/ce#supp.sam - lines changed 6, context: html, text, full: html, text
  • src/htslib/test/ce#tag_depadded.sam - lines changed 11, context: html, text, full: html, text
  • src/htslib/test/ce#tag_padded.sam - lines changed 11, context: html, text, full: html, text
  • src/htslib/test/ce#unmap.sam - lines changed 6, context: html, text, full: html, text
  • src/htslib/test/ce#unmap1.sam - lines changed 20, context: html, text, full: html, text
  • src/htslib/test/ce#unmap2.sam - lines changed 29, context: html, text, full: html, text
  • src/htslib/test/ce.fa - lines changed 20803, context: html, text, full: html, text
  • src/htslib/test/ce.fa.fai - lines changed 7, context: html, text, full: html, text
  • src/htslib/test/compare_sam.pl - lines changed 194, context: html, text, full: html, text
  • src/htslib/test/cross_validate.sh - lines changed 126, context: html, text, full: html, text
  • src/htslib/test/faidx.fa - lines changed 17, context: html, text, full: html, text
  • src/htslib/test/fieldarith.c - lines changed 72, context: html, text, full: html, text
  • src/htslib/test/fieldarith.sam - lines changed 15, context: html, text, full: html, text
  • src/htslib/test/hfile.c - lines changed 204, context: html, text, full: html, text
  • src/htslib/test/sam.c - lines changed 208, context: html, text, full: html, text
  • src/htslib/test/test-regidx.c - lines changed 116, context: html, text, full: html, text
  • src/htslib/test/test-vcf-api.c - lines changed 282, context: html, text, full: html, text
  • src/htslib/test/test-vcf-api.out - lines changed 28, context: html, text, full: html, text
  • src/htslib/test/test-vcf-hdr-in.vcf - lines changed 25, context: html, text, full: html, text
  • src/htslib/test/test-vcf-hdr.out - lines changed 16, context: html, text, full: html, text
  • src/htslib/test/test-vcf-sweep.c - lines changed 112, context: html, text, full: html, text
  • src/htslib/test/test-vcf-sweep.out - lines changed 4, context: html, text, full: html, text
  • src/htslib/test/test.pl - lines changed 227, context: html, text, full: html, text
  • src/htslib/test/test_view.c - lines changed 194, context: html, text, full: html, text
  • src/htslib/test/test_view.pl - lines changed 93, context: html, text, full: html, text
  • src/htslib/test/xx#blank.sam - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/htslib/test/xx#large_aux.sam - lines changed 4, context: html, text, full: html, text
  • src/htslib/test/xx#large_aux2.sam - lines changed 11, context: html, text, full: html, text
  • src/htslib/test/xx#minimal.sam - lines changed 10, context: html, text, full: html, text
  • src/htslib/test/xx#pair.sam - lines changed 7, context: html, text, full: html, text
  • src/htslib/test/xx#rg.sam - lines changed 13, context: html, text, full: html, text
  • src/htslib/test/xx#tlen.sam - lines changed 34, context: html, text, full: html, text
  • src/htslib/test/xx#tlen2.sam - lines changed 36, context: html, text, full: html, text
  • src/htslib/test/xx#triplet.sam - lines changed 7, context: html, text, full: html, text
  • src/htslib/test/xx#unsorted.sam - lines changed 8, context: html, text, full: html, text
  • src/htslib/test/xx.fa - lines changed 5, context: html, text, full: html, text
  • src/htslib/test/xx.fa.fai - lines changed 2, context: html, text, full: html, text
  • src/htslib/vcf.5 - lines changed 120, context: html, text, full: html, text
  • src/htslib/vcf.c - lines changed 3389, context: html, text, full: html, text
  • src/htslib/vcf_sweep.c - lines changed 183, context: html, text, full: html, text
  • src/htslib/vcfutils.c - lines changed 691, context: html, text, full: html, text
  • src/inc/bamFile.h - lines changed 29, context: html, text, full: html, text
  • src/inc/common.mk - lines changed 80, context: html, text, full: html, text
  • src/inc/linefile.h - lines changed 13, context: html, text, full: html, text
  • src/isPcr/gfPcr/makefile - lines changed 1, context: html, text, full: html, text
  • src/isPcr/isPcr/makefile - lines changed 1, context: html, text, full: html, text
  • src/isPcr/makefile - lines changed 1, context: html, text, full: html, text
  • src/isPcr/webPcr/makefile - lines changed 1, context: html, text, full: html, text
  • src/jkOwnLib/makefile - lines changed 1, context: html, text, full: html, text
  • src/jkOwnLib/tests/freen/makefile - lines changed 1, context: html, text, full: html, text
  • src/kehayden/alphaChain/makefile - lines changed 1, context: html, text, full: html, text
  • src/kehayden/learningLibs/makefile - lines changed 1, context: html, text, full: html, text
  • src/kehayden/linearSat/makefile - lines changed 1, context: html, text, full: html, text
  • src/kehayden/reverseCenReads/makefile - lines changed 1, context: html, text, full: html, text
  • src/kehayden/tokenizerLib/makefile - lines changed 1, context: html, text, full: html, text
  • src/lib/bamFile.c - lines changed 318, context: html, text, full: html, text
  • src/lib/knetUdc.c - lines changed 23, context: html, text, full: html, text
  • src/lib/linefile.c - lines changed 68, context: html, text, full: html, text
  • src/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/lib/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/lib/tests/tabixFetch.c - lines changed 10, context: html, text, full: html, text
  • src/makefile - lines changed 2, context: html, text, full: html, text
  • src/meta/metaHoist/makefile - lines changed 1, context: html, text, full: html, text
  • src/olly/checkSeed/makefile - lines changed 1, context: html, text, full: html, text
  • src/olly/makefile - lines changed 1, context: html, text, full: html, text
  • src/olly/ollySlow/makefile - lines changed 1, context: html, text, full: html, text
  • src/olly/sampleToWig/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/addFinFinf/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/balancedTree/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/blat2p/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/burstClient/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/burstServer/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/checkLayout/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/chkGlue/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/clusterBox/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/clusterClone/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/cntGlue/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/commonLines/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/countClient/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/countServer/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/coverage/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/dateXmlCgi/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/deEns/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/dynAlign/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/echoServer/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/findContigsWithClones/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/fixInfo/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/foo2/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/formatFastaSeq/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/grokGff/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/invert/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/jccTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/jksql/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/killRabbit/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/m22dirs/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/mafFindZero/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/mafTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/motifConvert/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/mungeAuthors/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/newSang6/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/newStitch/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/newStitch2/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/newStitch3/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/newStitch4/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/onePassBedToBigBed/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/ooRev/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/opendirTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/passHi/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/patJobs/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/preProcGgfAndy/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/randDNA/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/rbIntTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/rbTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/rgbaGfxTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/rt1dTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/scrapeCruzBiotech/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/shorten/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/smoothWindow/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/sources/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/splitSql/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/sqlToAs/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/tabTable/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/test/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/testBandExt/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/testCache/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/testGitRename/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/testPoly/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/testScripters/countLines/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/testScripters/wordUse/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/threadTime/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/uniqSize/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/unmasked/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/unwrap/makefile - lines changed 1, context: html, text, full: html, text
  • src/oneShot/wordsBySize/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/dataSim/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/gensub2/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/lib/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/netC/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/netS/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/para/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/paraHub/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/paraHubStop/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/paraNode/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/paraNodeStart/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/paraNodeStatus/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/paraNodeStop/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/paraTestJob/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/parasol/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/simpleC/makefile - lines changed 1, context: html, text, full: html, text
  • src/parasol/simpleS/makefile - lines changed 1, context: html, text, full: html, text
  • src/product/installer/makefile - lines changed 1, context: html, text, full: html, text
  • src/product/mirrorDocs/makefile - lines changed 1, context: html, text, full: html, text
  • src/reformat/fa4blast/makefile - lines changed 1, context: html, text, full: html, text
  • src/reformat/fsg/makefile - lines changed 1, context: html, text, full: html, text
  • src/reformat/gbToFaRa/makefile - lines changed 1, context: html, text, full: html, text
  • src/reformat/makeOrf2gene/makefile - lines changed 1, context: html, text, full: html, text
  • src/reformat/makec2c/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/bfastMafFix/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/bwtFind/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/bwtMake/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/bwtReverse/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/elandToSplat/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/i16Find/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/i16Make/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/itsaDump/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/itsaFind/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/itsaMake/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/shortRepeatFind/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/shortRepeatMerge/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/splat/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/splatCheck1/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/splatCheck2/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/splatMerge/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/splatTestSet/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/splatToEland/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/splixMake/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/streamer/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/sufaFind/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/sufaMake/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/sufaRepeatFind/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/sufxDump/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/sufxFind/makefile - lines changed 1, context: html, text, full: html, text
  • src/shortReads/sufxMake/makefile - lines changed 1, context: html, text, full: html, text
  • src/tagStorm/tagStormDeleteTags/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/tagStorm/tagStormInfo/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/tagStorm/tagStormJoinTab/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/test/makefile - lines changed 1, context: html, text, full: html, text
  • src/tracks/makefile - lines changed 1, context: html, text, full: html, text
  • src/userApps/Makefile - lines changed 5, context: html, text, full: html, text
  • src/userApps/fetchKentSource.sh - lines changed 11, context: html, text, full: html, text
  • src/utils/asCompare/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/bbTest/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/bdfToGem/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/bedScore/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/bedToBigBed/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/bigWigCat/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/bigWigMerge/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/callGraph/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/ccCpLock/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/chainDist/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/colCount/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/colorConv/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/combineFiles/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/correlate/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/dnsInfo/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/est2genomeToPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/est2genomeToPsl/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/faFilter/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/faLowerToN/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/faRandomize/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/faRenameRecords/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/fastaToPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/fileExists/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/genFedTableDef/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/geneStarts/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/gitTools/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/greedyPack/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/lineFileSplit/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/lineRange/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/linesInAllFiles/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/makeRgbRainbow/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/mapViewerToGenePred/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/maxEachRow/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/minEachRow/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/nibCheck/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/plotDataMatrix/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/pslLiftSubrangeBlat/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/pslScore/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/qa/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/raFromTab/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/raMerge/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/raToSvmLight/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/replaceTextBetween/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/sets/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/shuffleLines/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/sortFa/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/tTestTwo/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/textBetween/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/vennIds/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/vulgarToPsl/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/wgetMd5/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/wigAsciiCrunch/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/wigAsciiToBinary/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/wigSetSpanOrStep/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/wigSort/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/wigToBed/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/wigToBedGraph/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/wigToBigWig/tests/makefile - lines changed 1, context: html, text, full: html, text
  • src/utils/wordsInEachLine/makefile - lines changed 1, context: html, text, full: html, text
  • src/webBlat/makefile - lines changed 1, context: html, text, full: html, text
  • src/xenoAli/aliStats/makefile - lines changed 1, context: html, text, full: html, text
  • src/xenoAli/blastStats/makefile - lines changed 1, context: html, text, full: html, text
  • src/xenoAli/cbAli/makefile - lines changed 1, context: html, text, full: html, text
  • src/xenoAli/newIntron/makefile - lines changed 1, context: html, text, full: html, text
  • src/xenoAli/smithWat/makefile - lines changed 1, context: html, text, full: html, text
  • src/xenoAli/waba/makefile - lines changed 1, context: html, text, full: html, text
  • src/xenoAli/xaShow/makefile - lines changed 1, context: html, text, full: html, text
  • src/xenoAli/xenWorm/makefile - lines changed 1, context: html, text, full: html, text

c7a10861a4d7ab2da31818d8b1404d4afc6aa640 Mon Jul 11 15:50:31 2016 -0700

• remove large sam file
  
  • src/htslib/test/ce#large_seq.sam - lines changed 3, context: html, text, full: html, text

172c9065c1e6d94aabd25f63b238f17b9a51bffc Tue Jul 12 08:49:47 2016 -0700

• fix some compiler warnings in htslib
  
  • src/htslib/cram/cram_index.c - lines changed 1, context: html, text, full: html, text
  • src/htslib/hts.c - lines changed 7, context: html, text, full: html, text
  • src/htslib/sam.c - lines changed 1, context: html, text, full: html, text