CVS changes by file

review to branch (2009-03-03 to 2009-03-10) v202

• src/ai/growNet/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/ai/letterChain/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/ai/pairCompress/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/ai/wordChain/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/blat/makefile
  • 1.34 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/blatTheory/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/blatz/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/cdnaAli/cluster/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/dnaDust/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/gfClient/makefile
  • 1.18 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/gfServer/makefile
  • 1.25 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/affyGnf/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/affyTransciptome/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/agpAllToFaFile/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/agpCloneCheck/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/agpCloneList/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/agpToFa/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/agpToGl/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/agpTweak/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/altGraph/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/altSplice/affySplice/makefile
  • 1.12 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/altSplice/agxToXml/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/altSplice/altSplice/makefile
  • 1.19 lines changed: 2, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/altSplice/axtCountBeds/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/altSplice/exonWalk/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/altSplice/filterEdges/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/altSplice/lib/makefile
  • 1.16 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/altSplice/spliceWalk/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/archaeStuff/scripts/archaeBrowser/Constant.pm
  • 1.27 lines changed: 28, context: html, text, full: html, text
    change aero to archdev, lowedev to collab, and isla to test; add functions to load swissprot db and pfam desc
• src/hg/archaeStuff/scripts/archaeBrowser/GenePrediction.pm
  • 1.6 lines changed: 4, context: html, text, full: html, text
    update StringDb link to use TaxID instead of species name
• src/hg/archaeStuff/scripts/archaeBrowser/GenomeInfo.pm
  • 1.13 lines changed: 1, context: html, text, full: html, text
    change aero to archdev, lowedev to collab, and isla to test; add functions to load swissprot db and pfam desc
• src/hg/archaeStuff/scripts/archaeBrowser/OrganismDb.pm
  • 1.28 lines changed: 10, context: html, text, full: html, text
    change aero to archdev, lowedev to collab, and isla to test; add functions to load swissprot db and pfam desc
• src/hg/archaeStuff/scripts/archaeBrowser/ProteinDb.pm
  • 1.1 lines changed: 131, context: html, text, full: html, text
    change aero to archdev, lowedev to collab, and isla to test; add functions to load swissprot db and pfam desc
• src/hg/archaeStuff/scripts/make-browser-2.0
  • 1.35 lines changed: 9, context: html, text, full: html, text
    change aero to archdev, lowedev to collab, and isla to test; add functions to load swissprot db and pfam desc
• src/hg/archaeStuff/utils/gbArchaeGenome/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/autoDtd/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/autoSql/makefile
  • 1.15 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/autoSql/tests/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/autoXml/t/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/baseMask/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bedIntersect/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bedItemOverlapCount/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bedOrBlocks/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bedOverlap/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bedSort/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bedSplitOnChrom/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bedThickOnly/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bedToGenePred/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bioImage/bioImageLoad/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bioImage/hgBioImage/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bioImage/knownToBioImage/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/bioImage/loadMahoney/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/blastToPsl/makefile
  • 1.22 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/borfBig/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/cartDump/makefile
  • 1.15 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/cartReset/makefile
  • 1.16 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ccTrack/bedToBinDex/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/cgiExample/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/checkHgFindSpec/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/checkTableCoords/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/chimpStuff/chimpChromContigAgp/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/chimpStuff/chimpHiQualDiffs/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/chimpStuff/chimpSuperQuals/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ctgFaToFa/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ctgToChromFa/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/das/makefile
  • 1.15 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/dbTrash/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/dnaGene/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/embossToPsl/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/encode/DAFs/HelicosRnaSeq.daf
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Transfrags not required at this stage
• src/hg/encode/DAFs/WoldRnaSeq.daf
  • 1.5 lines changed: 12, context: html, text, full: html, text
    cant put pipeline data in daf as it doesnt have variables associated
  • 1.4 lines changed: 12, context: html, text, full: html, text
    adding rawdata files for Wold pipeline input data
  • 1.3 lines changed: 38, context: html, text, full: html, text
    updated DAF to handle more raw data files
• src/hg/encode/encodeLoad/doEncodeLoad.pl
  • 1.57 lines changed: 3, context: html, text, full: html, text
    dont add name indexes onto this highthroughput data
• src/hg/encode/encodeValidate/config/cv.ra
  • 1.84 lines changed: 1, context: html, text, full: html, text
    shorter codes
  • 1.83 lines changed: 4, context: html, text, full: html, text
    Added rediculous variable freezeDate, rather than rewrite pipeline
  • 1.82 lines changed: 1, context: html, text, full: html, text
    fixed typo
  • 1.81 lines changed: 9, context: html, text, full: html, text
    new variable readType for Caltech
  • 1.80 lines changed: 2, context: html, text, full: html, text
    removed some gnarly chars for javascript
  • 1.79 lines changed: 1, context: html, text, full: html, text
    Clarified Large_Fragment description
• src/hg/encode/encodeValidate/config/labs.ra
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Tim is the Wrangler for Sanger's Encode Gencode
• src/hg/encode/encodeValidate/doEncodeValidate.pl
  • 1.165 lines changed: 1, context: html, text, full: html, text
    CS fasta can have G sequences evidnetly
  • 1.164 lines changed: 4, context: html, text, full: html, text
    open tars
  • 1.163 lines changed: 6, context: html, text, full: html, text
    diff header coming from GIS
  • 1.162 lines changed: 3, context: html, text, full: html, text
    maybe there are more rawdatas in future...
  • 1.161 lines changed: 6, context: html, text, full: html, text
    readType validator for Wold/Caltech
  • 1.160 lines changed: 2, context: html, text, full: html, text
    get rid of @_ deprecated warning
  • 1.159 lines changed: 20, context: html, text, full: html, text
    3 different flavors of rpkm; just check the cols are there
  • 1.158 lines changed: 6, context: html, text, full: html, text
    validator for frag size for GIS gDNA PET
• src/hg/encode/hgEncodeDataVersions/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/encode/hgEncodeScheduler/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/encode/hgEncodeSubmit/runforever.sample
  • 1.2 lines changed: 3, context: html, text, full: html, text
    tweak
  • 1.1 lines changed: 19, context: html, text, full: html, text
    runforever for production instance
• src/hg/encode/hgEncodeVocab/hgEncodeVocab.c
  • 1.21 lines changed: 1, context: html, text, full: html, text
    Remove extra slash in link
  • 1.20 lines changed: 1, context: html, text, full: html, text
    Protocols are now pdfs not docs
  • 1.19 lines changed: 10, context: html, text, full: html, text
    put the url around the term id
• src/hg/encode/hgEncodeVocab/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/encode/ldGencodeIntron/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/encode/regionAgp/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/encode/regionOrtho/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/estOrient/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/extractPslForLfs/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/fakeFinContigs/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/featureBits/makefile
  • 1.13 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ffaToFa/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/fishClones/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/fqToQa/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/fqToQac/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/fragPart/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gbGetEntries/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gbOneAcc/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gbToFaRa/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/assessLibs/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/averagExp/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/axtForEst/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/bedCons/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/bedThickToCds/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/checkableBorf/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/clusterGenes/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/clusterPsl/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/clusterRna/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/dnaMotifFind/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/eisenInput/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/emblMatrixToMotif/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/estLibStats/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/expToRna/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/iriToControlTable/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/iriToDnaMotif/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/lib/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/liftPromoHits/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/motifLogo/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/motifSig/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/orf/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/orfCompare/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/orfEnum/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/orfStats/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/polyInfo/makefile
  • 1.12 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/promoSeqFromCluster/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/raToCds/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/twinOrf/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/twinOrf2/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/twinOrf3/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/twinOrfStats/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/twinOrfStats2/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneBounds/twinOrfStats3/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/geneOverlap/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/genePredCheck/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/genePredHisto/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/genePredSingleCover/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/genePredToFakePsl/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/genePredToGtf/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/genePredToMafFrames/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/genePredToMrna/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/genoPheno/gpFakeData/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/genoPheno/gpShuffleData/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/getFeatDna/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/getRna/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/getRnaPred/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/getallpep/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/barger/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/checkAgpAndFa/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/checkDbSync/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/checkGoldDupes/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/checkN/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/checkNt/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/checkOut/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/checkPsl/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/checkQa/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/checkYbr/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/cmParse/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/cmpMap/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/codJobs/jabba/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/conJobs/cdnaOnOoJobs/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/conJobs/patJobs/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/conJobs/pslGenoJobs/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/conJobs/pslOoJobs/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/conJobs/pslSelfJobs/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/conJobs/repMaskJobs/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/conJobs/rmskOoJobs/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/g2gOverlap/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/g2gSeqOverlap/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/gapper/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/goldToAgp/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/makePai/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/mendMap/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/mm/checkEnds/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/mm/mm/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/mm/mmTestSet/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/mm/ooMapMend/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ntGoldGl/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooChains/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooCloneEnds/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooCloneInfo/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooCloneOverlaps/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooCloneSizes/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooCloneSpan/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooGreedy/bak/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooGreedy/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooLiftSpec/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooNtInput/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooSplitFins/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooTester/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/ooWeedZero/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/pairedReads/ppAnalyse/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/pairedReads/ppSanger/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/pairedReads/ppStats/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/pairedReads/ppWashU/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/pairedReads/ppWhitehead/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/psLayout/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gigAssembler/qaGold/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gpStats/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gpToGtf/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gpcrParser/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsBig/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/gsIdXref/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/gsidAaMsa/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/gsidGetConsensus/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/gsidMember/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/gsidMsa/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/gsidMsaToTab/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/gsidPbGateway/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/gsidPosSelect/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/gsidSubj/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/gsidTable/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/pbGsid/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/gsid/pwdtest/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgBatch/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgBlat/makefile
  • 1.21 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgBlatTest/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgCert/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgChroms/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgConvert/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgCoordConv/makefile
  • 1.15 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgCustom/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgGateway/makefile
  • 1.16 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgGene/makefile
  • 1.38 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgGeneBands/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgGeneList/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgGeneRing/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgGenome/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgGetAnn/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgKnownGeneList/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgLiftOver/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgNotYet/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgPal/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgPcr/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgSelect/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgSession/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgSpeciesRna/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgTables/correlate.c
  • 1.71 lines changed: 13, context: html, text, full: html, text
    First cut of bigWig integration. Handles data point and stats output in cases where there are no filters or intersections going.
• src/hg/hgTables/hgTables.c
  • 1.172 lines changed: 21, context: html, text, full: html, text
    First cut of bigWig integration. Handles data point and stats output in cases where there are no filters or intersections going.
• src/hg/hgTables/hgTables.h
  • 1.124 lines changed: 15, context: html, text, full: html, text
    First cut of bigWig integration. Handles data point and stats output in cases where there are no filters or intersections going.
• src/hg/hgTables/mainPage.c
  • 1.136 lines changed: 5, context: html, text, full: html, text
    First cut of bigWig integration. Handles data point and stats output in cases where there are no filters or intersections going.
• src/hg/hgTables/makefile
  • 1.50 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgTables/schema.c
  • 1.53 lines changed: 1, context: html, text, full: html, text
    First cut of bigWig integration. Handles data point and stats output in cases where there are no filters or intersections going.
• src/hg/hgTables/sumStats.c
  • 1.23 lines changed: 2, context: html, text, full: html, text
    First cut of bigWig integration. Handles data point and stats output in cases where there are no filters or intersections going.
• src/hg/hgTables/wiggle.c
  • 1.67 lines changed: 139, context: html, text, full: html, text
    First cut of bigWig integration. Handles data point and stats output in cases where there are no filters or intersections going.
• src/hg/hgTablesTest/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgTrackUi/hgTrackUi.c
  • 1.476 lines changed: 4, context: html, text, full: html, text
    Added support for hapmapSnpsPhaseII track (replaced by the new PhaseIII track in 18, but kept around in case folks relied on its het. calcs).
  • 1.475 lines changed: 22, context: html, text, full: html, text
    HapMap SNPs: Added distinction between expected and observed heterozygosity for filtering. Finally checking in Phase III filtering code in hgTracks/hapmapTrack.c.
• src/hg/hgTrackUi/makefile
  • 1.22 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgTracks/bedTrack.c
  • 1.5 lines changed: 8, context: html, text, full: html, text
    There isn't actaully a cart var for these
  • 1.4 lines changed: 14, context: html, text, full: html, text
    Fixed gray level code to use ClosestToHome and cart values
• src/hg/hgTracks/cutterTrack.c
  • 1.14 lines changed: 4, context: html, text, full: html, text
    Cleaning up gray level code lead me to remove these unused calls
• src/hg/hgTracks/encode.c
  • 1.20 lines changed: 2, context: html, text, full: html, text
    There isn't actaully a cart var for these
  • 1.19 lines changed: 6, context: html, text, full: html, text
    Fixed gray level code to use ClosestToHome and cart values
• src/hg/hgTracks/hapmapTrack.c
  • 1.47 lines changed: 12, context: html, text, full: html, text
    Added support for hapmapSnpsPhaseII track (replaced by the new PhaseIII track in 18, but kept around in case folks relied on its het. calcs).
  • 1.46 lines changed: 1, context: html, text, full: html, text
    For filter 'matches minor human allele', make sure the minor allele has been observed in at least one sample.
  • 1.45 lines changed: 440, context: html, text, full: html, text
    HapMap SNPs: Added distinction between expected and observed heterozygosity for filtering. Finally checking in Phase III filtering code in hgTracks/hapmapTrack.c.
• src/hg/hgTracks/hgTracks.c
  • 1.1558 lines changed: 20, context: html, text, full: html, text
    Fix for defaulting composite tracks. Requires Stdized view vis select name.
  • 1.1557 lines changed: 10, context: html, text, full: html, text
    Fixed gray level code to use ClosestToHome and cart values
• src/hg/hgTracks/makefile
  • 1.83 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgTracks/rnaFoldTrack.c
  • 1.8 lines changed: 2, context: html, text, full: html, text
    There isn't actaully a cart var for these
  • 1.7 lines changed: 4, context: html, text, full: html, text
    Fixed gray level code to use ClosestToHome and cart values
• src/hg/hgTracks/simpleTracks.c
  • 1.68 lines changed: 1, context: html, text, full: html, text
    Added support for hapmapSnpsPhaseII track (replaced by the new PhaseIII track in 18, but kept around in case folks relied on its het. calcs).
  • 1.67 lines changed: 15, context: html, text, full: html, text
    Change grayLevel even when cart variable has not been set.
  • 1.66 lines changed: 2, context: html, text, full: html, text
    Ouch! Accidental check in of experimental code.
  • 1.65 lines changed: 2, context: html, text, full: html, text
    Fixed gray level code to use ClosestToHome and cart values
  • 1.64 lines changed: 16, context: html, text, full: html, text
    Fixed gray level code to use ClosestToHome and cart values
• src/hg/hgc/encodeClick.c
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Correct misleading label
• src/hg/hgc/expClick.c
  • 1.23 lines changed: 4, context: html, text, full: html, text
    Added outside link to microarray custom tracks.
• src/hg/hgc/hgc.c
  • 1.1516 lines changed: 10, context: html, text, full: html, text
    Added support for hapmapSnpsPhaseII track (replaced by the new PhaseIII track in 18, but kept around in case folks relied on its het. calcs).
  • 1.1515 lines changed: 2, context: html, text, full: html, text
    HapMap SNPs heterozygosity label: tweaked to match hgTrackUi.
  • 1.1514 lines changed: 25, context: html, text, full: html, text
    HapMap SNPs: Added a trackDb setting to determine whether this particular track is Phase II or Phase III. Made the Heterozygosity labels more clear: the older versions of the track have expected het, but as of Phase III we're doing observed het. Fixed avg. obs. het calc ( oops, item- > score is minor allele freq not het! ) .
  • 1.1513 lines changed: 12, context: html, text, full: html, text
    Add ENCODE data restriction timestamp
• src/hg/hgc/makefile
  • 1.59 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgcentralTidy/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgsql/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgsqlLocal/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgsqladmin/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgsqldump/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgsqldumpLocal/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/hgsqlimport/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/inc/hapmapPhaseIIISummary.h
  • 1.1 lines changed: 74, context: html, text, full: html, text
    Adding hapmapPhaseIIISummary: properties used to filter hapmapSnps in hgTracks.
• src/hg/inc/hapmapSnps.h
  • 1.7 lines changed: 23, context: html, text, full: html, text
    HapMap SNPs: Added distinction between expected and observed heterozygosity for filtering. Finally checking in Phase III filtering code in hgTracks/hapmapTrack.c.
• src/hg/inc/versionInfo.h
  • 1.142 lines changed: 1, context: html, text, full: html, text
    "New version number v202"
• src/hg/instinct/bioIntegrator/bioIntDriver.c
  • 1.12 lines changed: 156, context: html, text, full: html, text
    updated makefile and code
• src/hg/instinct/bioIntegrator/bioIntDriver.h
  • 1.11 lines changed: 5, context: html, text, full: html, text
    updated makefile and code
• src/hg/instinct/bioIntegrator/bioMeta.c
  • 1.1 lines changed: 569, context: html, text, full: html, text
    initial commit of meta-analysis code
• src/hg/instinct/bioIntegrator/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
  • 1.5 lines changed: 13, context: html, text, full: html, text
    updated makefile and code
• src/hg/instinct/bioIntegrator/populateDb.c
  • 1.6 lines changed: 4, context: html, text, full: html, text
    fixed issue with unsigned doubles being entered into clinicalData
• src/hg/instinct/chin2006Subj/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/clinTree/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/downsampleBed/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/genTables/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/genTables2/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/generateSummarySNP/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/genomicTableToTab/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/hgBed15ToArrayVal/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/hgHeatmap/makefile
  • 1.16 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/hgHeatmap2/hgHeatmapData/columnDb_harada2008.ra
  • 1.1 lines changed: 45, context: html, text, full: html, text
    New dataset
• src/hg/instinct/hgHeatmap2/hgHeatmapData/columnDb_mullighan2008_500K.ra
  • 1.1 lines changed: 27, context: html, text, full: html, text
    New dataset
• src/hg/instinct/hgHeatmap2/hgHeatmapData/datasets.ra
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    New datasets
• src/hg/instinct/hgHeatmap2/hgHeatmapFrontend/js/hgHeatmap.js
  • 1.69 lines changed: 6, context: html, text, full: html, text
    Fixed issue where jumping to genome browser was broken
• src/hg/instinct/hgHeatmap2/makefile
  • 1.19 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/inc/cprob.h
  • 1.1 lines changed: 13, context: html, text, full: html, text
    moving cprob.h to inc directory
• src/hg/instinct/instinctMember/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/ispyMember/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/ispyPathway/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/ispySubj/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/lib/cprob.h
  • 1.3 lines changed: 13, context: html, text, full: html, text
    moving cprob.h to inc directory
• src/hg/instinct/lib/cprob/igam.c
  • 1.2 lines changed: 2, context: html, text, full: html, text
    moving cprob.h to inc directory
• src/hg/instinct/lib/cprob/ndtr.c
  • 1.2 lines changed: 0, context: html, text, full: html, text
    moving cprob.h to inc directory
• src/hg/instinct/lib/hgStatsLib.c
  • 1.11 lines changed: 1, context: html, text, full: html, text
    moving cprob.h to inc directory
• src/hg/instinct/lib/makefile
  • 1.13 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/mapProbesToGenes/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/segmentBed/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/subjectView/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/tcgaSubj/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/instinct/xRefLookup/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/intronEnds/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/intronSizes/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/js/hui.js
  • 1.21 lines changed: 78, context: html, text, full: html, text
    Stdize view vis select name. Support for disabling view cfgs on hide NOT TURNED ON. Converted more code to jQuery.
• src/hg/js/utils.js
  • 1.13 lines changed: 27, context: html, text, full: html, text
    Removed obsolete function
• src/hg/lfsOverlap/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/lib/encode/broadPeak.as
  • 1.3 lines changed: 2, context: html, text, full: html, text
    Correct comments for encode Peaks schemas
• src/hg/lib/encode/encodePeak.as
  • 1.5 lines changed: 2, context: html, text, full: html, text
    Correct comments for encode Peaks schemas
  • 1.4 lines changed: 2, context: html, text, full: html, text
    Update comments
• src/hg/lib/encode/gappedPeak.as
  • 1.3 lines changed: 2, context: html, text, full: html, text
    Correct comments for encode Peaks schemas
• src/hg/lib/encode/narrowPeak.as
  • 1.3 lines changed: 2, context: html, text, full: html, text
    Correct comments for encode Peaks schemas
• src/hg/lib/hapmapPhaseIIISummary.as
  • 1.1 lines changed: 24, context: html, text, full: html, text
    Adding hapmapPhaseIIISummary: properties used to filter hapmapSnps in hgTracks.
• src/hg/lib/hapmapPhaseIIISummary.c
  • 1.1 lines changed: 272, context: html, text, full: html, text
    Adding hapmapPhaseIIISummary: properties used to filter hapmapSnps in hgTracks.
• src/hg/lib/hapmapPhaseIIISummary.sql
  • 1.1 lines changed: 30, context: html, text, full: html, text
    Adding hapmapPhaseIIISummary: properties used to filter hapmapSnps in hgTracks.
• src/hg/lib/hgExp.c
  • 1.18 lines changed: 9, context: html, text, full: html, text
    Changed the expRatio column type so that it doesn't need to have a knownTo* table, rather a "null" indicates that the microarray table uses knownGene identifiers.
• src/hg/lib/hui.c
  • 1.168 lines changed: 4, context: html, text, full: html, text
    Switch ENCODE downloads link to appropriate downloads server. Also, Add link to multi-view help.
  • 1.167 lines changed: 8, context: html, text, full: html, text
    Shift view cfgs to unique positions. Stdize view vis select name.
  • 1.166 lines changed: 3, context: html, text, full: html, text
    Six of one...
  • 1.165 lines changed: 3, context: html, text, full: html, text
    Label was confusing in this context
  • 1.164 lines changed: 11, context: html, text, full: html, text
    Fixed HTML error and ifdef'd out useless code.
  • 1.163 lines changed: 38, context: html, text, full: html, text
    Fix filterByScore assumptions
• src/hg/lib/makefile
  • 1.387 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
  • 1.386 lines changed: 1, context: html, text, full: html, text
    Adding hapmapPhaseIIISummary: properties used to filter hapmapSnps in hgTracks.
• src/hg/lib/tests/makefile
  • 1.17 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/liftAcross/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/liftAgp/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/liftFrags/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/liftOver/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/liftUp/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/logCrawl/hgAccessCrawl/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/logCrawl/sessionDbCrawl/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/doc/hg18.txt
  • 1.353 lines changed: 364, context: html, text, full: html, text
    Added HapMap Recomb Rate (rel22) and updated HapMap SNPs (rel27). Moved a shared inline script out (to hg/snp/snpLoad/getOrthoSeq.pl).
• src/hg/makeDb/doc/hg19.txt
  • 1.2 lines changed: 145, context: html, text, full: html, text
    Done with masking, ready to start genbank when that gets out there
  • 1.1 lines changed: 142, context: html, text, full: html, text
    Initial database established
• src/hg/makeDb/genbank/common.mk
  • 1.26 lines changed: 2, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/genbank/doc/to-do.txt
  • 1.110 lines changed: 2, context: html, text, full: html, text
    added to-do
• src/hg/makeDb/genbank/etc/genbank.conf
  • 1.329 lines changed: 24, context: html, text, full: html, text
    Added hg19.
• src/hg/makeDb/genbank/etc/hgwbeta.dbs
  • 1.96 lines changed: 1, context: html, text, full: html, text
    Turned on genbank updates for new yeast.
• src/hg/makeDb/hgAddLiftOverChain/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgBbiDbLink/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgBedsToBedExps/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgCalStat/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgCgiData/Human/microarrayGroups.ra
  • 1.65 lines changed: 102, context: html, text, full: html, text
    New datasets
• src/hg/makeDb/hgClonePos/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgCountAlign/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgCtgPos/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgCutters/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgDeleteChrom/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgDropSplitTable/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgExperiment/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgExtFileCheck/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgFakeAgp/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgFindSpec/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgGcPercent/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgGeneBands/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgGenericMicroarray/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgGetKgUrls/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgGetNrOmimGene/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgGoldGapGl/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgKgGetText/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgKgMrna/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgKnownMore.oo21/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgKnownMore/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadAxt/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadBed/makefile
  • 1.21 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadBlastTab/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadCdsEvidence/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadChain/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadChromGraph/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadGenePred/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadItemAttr/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadMaf/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadMafFrames/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadNet/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadOut/makefile
  • 1.12 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadPsl/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadSample/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadSeq/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadSqlTab/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgLoadWiggle/makefile
  • 1.23 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgMapMicroarray/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgMedianMicroarray/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgMrnaRefseq/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgNibSeq/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgPepPred/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgRatioMicroarray/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgRenameSplitTable/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgSanger20/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgSanger22/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgStanfordMicroarray/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgStsAlias/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgStsMarkers/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgTomRough/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgTpf/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgTraceInfo/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgTrackDb/makefile
  • 1.31 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/hgWaba/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/htTpf/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/ldHgGene/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/allenBrain/allenCleanup/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/allenBrain/allenCollectSeq/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/cgapSage/cgapSageBedAddFreqs/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/cgapSage/cgapSageFind/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/exonerateGffDoctor/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgAvidShortBed/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgBioCyc/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgCGAP/hgCGAP.c
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Relaxed the abort to warning to accomodate raw data file imperfection.
• src/hg/makeDb/outside/hgCGAP/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgExonerate/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgFiberglass/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgFlyBase/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgGnfMicroarray/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgJaxQtl/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgKegg/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgKegg2/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgKegg3/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgLoadEranModules/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgLsSnpPdbLoad/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgPhMouse/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgRnaGenes/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgSoftPromoter/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgSoftberryHom/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/hgSuperfam/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/nibb/nibbImageProbes/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/nibb/nibbNameFix/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/nibb/nibbParseImageDir/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/nibb/nibbPrepImages/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/samHit/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/sanger22gtf/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/vegaBuildInfo/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/yeast/checkSgdSync/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/yeast/fixHarbisonMotifs/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/yeast/hgSgdGff3/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/yeast/hgSgdGfp/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/yeast/hgSgdPep/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/outside/yeast/hgYeastRegCode/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/schema/all.joiner
  • 1.699 lines changed: 5, context: html, text, full: html, text
    Added Human Genome Diversity Project tracks.
  • 1.698 lines changed: 1, context: html, text, full: html, text
    Added monDom5
• src/hg/makeDb/schema/dbFindFieldsWith/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/schema/dbSnoop/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/schema/joinableFields/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/schema/joinerCheck/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/schema/joinerGraph/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/schema/makeTableDescriptions/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/simpleGap/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/tfbsConsSort/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/makeDb/trackDb/cow/bosTau4/nscanGene.html
  • 1.3 lines changed: 6, context: html, text, full: html, text
    added new credita to N-SCAN tracks
• src/hg/makeDb/trackDb/drosophila/dm3/nscanPasaGene.html
  • 1.3 lines changed: 6, context: html, text, full: html, text
    added new credita to N-SCAN tracks
• src/hg/makeDb/trackDb/guineaPig/cavPor3/nscanGene.html
  • 1.2 lines changed: 6, context: html, text, full: html, text
    added new credita to N-SCAN tracks
• src/hg/makeDb/trackDb/haplotypes/hg19Haps/description.html
  • 1.2 lines changed: 1, context: html, text, full: html, text
    fixup ssto_hap6 name to ssto_hap7
  • 1.1 lines changed: 33, context: html, text, full: html, text
    Initial set of files describing these haplotypes
• src/hg/makeDb/trackDb/haplotypes/hg19Haps/gap.html
  • 1.1 lines changed: 10, context: html, text, full: html, text
    Initial set of files describing these haplotypes
• src/hg/makeDb/trackDb/haplotypes/hg19Haps/gold.html
  • 1.2 lines changed: 1, context: html, text, full: html, text
    fixup ssto_hap6 name to ssto_hap7
  • 1.1 lines changed: 21, context: html, text, full: html, text
    Initial set of files describing these haplotypes
• src/hg/makeDb/trackDb/haplotypes/hg19Haps/trackDb.ra
  • 1.1 lines changed: 19, context: html, text, full: html, text
    Initial set of files describing these haplotypes
• src/hg/makeDb/trackDb/horse/equCab2/nscanGene.html
  • 1.2 lines changed: 6, context: html, text, full: html, text
    added new credita to N-SCAN tracks
• src/hg/makeDb/trackDb/human/hapmapSnps.html
  • 1.34 lines changed: 155, context: html, text, full: html, text
    Moved human/hapmapSnps.html down to human/hg18/hapmapSnps.html. Added clarification of what is meant by heterozygosity in old and new HapMap SNPs.
• src/hg/makeDb/trackDb/human/hg17/hapmapSnps.html
  • 1.2 lines changed: 22, context: html, text, full: html, text
    Moved human/hapmapSnps.html down to human/hg18/hapmapSnps.html. Added clarification of what is meant by heterozygosity in old and new HapMap SNPs.
• src/hg/makeDb/trackDb/human/hg17/nscan.html
  • 1.8 lines changed: 6, context: html, text, full: html, text
    added new credita to N-SCAN tracks
• src/hg/makeDb/trackDb/human/hg18/hapmapSnps.html
  • 1.1 lines changed: 193, context: html, text, full: html, text
    Moved human/hapmapSnps.html down to human/hg18/hapmapSnps.html. Added clarification of what is meant by heterozygosity in old and new HapMap SNPs.
• src/hg/makeDb/trackDb/human/hg18/hapmapSnpsPhaseII.html
  • 1.1 lines changed: 178, context: html, text, full: html, text
    Resurrecting old human/hapmapSnps.html as the renamed hapmapSnpsPhaseII. Added note about heterozygosity calculation and latest HapMap pub ref.
• src/hg/makeDb/trackDb/human/hg18/nscan.html
  • 1.5 lines changed: 5, context: html, text, full: html, text
    added new credita to N-SCAN tracks
• src/hg/makeDb/trackDb/human/hg18/nscanGene.html
  • 1.10 lines changed: 6, context: html, text, full: html, text
    added new credita to N-SCAN tracks
• src/hg/makeDb/trackDb/human/hg18/trackDb.instinct.ra
  • 1.39 lines changed: 91, context: html, text, full: html, text
    New datasets
• src/hg/makeDb/trackDb/human/hg18/trackDb.ra
  • 1.381 lines changed: 58, context: html, text, full: html, text
    Added hapmapSnpsPhaseII track (replaced by the new PhaseIII track in hg18, but kept around in case folks relied on its het. calcs). Added hapmapPhase setting to snp129. Just for kicks, checking in hapmapRecombRateBW, a BigWig.
  • 1.380 lines changed: 1, context: html, text, full: html, text
    More specific longLabel for hapmapSnps.
  • 1.379 lines changed: 16, context: html, text, full: html, text
    Adding hapmapPhase setting to hapmapSnps. Adding hapmapRecombRate track.
• src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra
  • 1.200 lines changed: 89, context: html, text, full: html, text
    removing CSHL stuff while it is reprocessed
  • 1.199 lines changed: 183, context: html, text, full: html, text
    last tracks for RIKEN
  • 1.198 lines changed: 398, context: html, text, full: html, text
    added original Caltech data
  • 1.197 lines changed: 125, context: html, text, full: html, text
    removed 'release beta' for Yale TFBS tracks
  • 1.196 lines changed: 125, context: html, text, full: html, text
    Changed Yale tracks from alpha to beta release
  • 1.195 lines changed: 20, context: html, text, full: html, text
    Updated ENCODE Gencode to the latest release. Also rearranged some deck chairs in Duke
  • 1.194 lines changed: 375, context: html, text, full: html, text
    adding second set of data, new cv.ra type
  • 1.193 lines changed: 24, context: html, text, full: html, text
    shortend name for table name
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    shorter codes
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    fixing up cell types by removing (+) chars
  • 1.190 lines changed: 188, context: html, text, full: html, text
    Reformatting Caltech tracks and description
  • 1.189 lines changed: 692, context: html, text, full: html, text
    Fix up many long labels
  • 1.188 lines changed: 198, context: html, text, full: html, text
    All tracks now have short labels pruned to 16
  • 1.187 lines changed: 2, context: html, text, full: html, text
    Fixed a spanList problem in Duke's K562 Input track
  • 1.186 lines changed: 1, context: html, text, full: html, text
    Missed setting color this one
  • 1.185 lines changed: 232, context: html, text, full: html, text
    Fix syntax error in colors
  • 1.184 lines changed: 390, context: html, text, full: html, text
    Color cells for all tracks by tissue type (Novartis conventions)
  • 1.183 lines changed: 138, context: html, text, full: html, text
    Color cell types following Novartis GNF tissue coloring conventions
  • 1.182 lines changed: 7, context: html, text, full: html, text
    Minor longLabel changes
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    Tweak on sort order
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    Minor changes for usability. Fix errant minScore
  • 1.179 lines changed: 75, context: html, text, full: html, text
    Remove Tiers from cell types. Turn off more tracks by default on Yale
  • 1.178 lines changed: 2, context: html, text, full: html, text
    Changes for consistency
  • 1.177 lines changed: 3, context: html, text, full: html, text
    friendlier labels
  • 1.176 lines changed: 1, context: html, text, full: html, text
    Allow filtering by score on Yale. This is required for min gray shade.
  • 1.175 lines changed: 226, context: html, text, full: html, text
    Edit long labels for consistency. Prune Yale long labels for length
  • 1.174 lines changed: 64, context: html, text, full: html, text
    Prune Yale shortlabels for length and consistency
• src/hg/makeDb/trackDb/human/hg18/wgEncodeAffyRnaChip.html
  • 1.9 lines changed: 1, context: html, text, full: html, text
    fixing tpyo
  • 1.8 lines changed: 63, context: html, text, full: html, text
    wrapping at 80 chars
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    adding data release policy, cell culture specs, and changing bold to italics
  • 1.6 lines changed: 27, context: html, text, full: html, text
    final adjustments to text
  • 1.5 lines changed: 1, context: html, text, full: html, text
    added contact email
  • 1.4 lines changed: 5, context: html, text, full: html, text
    forgot A targets
• src/hg/makeDb/trackDb/human/hg18/wgEncodeCaltechRnaSeq.html
  • 1.8 lines changed: 4, context: html, text, full: html, text
    fixing view names
  • 1.7 lines changed: 3, context: html, text, full: html, text
    added link to downloads
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    added text for download file method
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    wrapping at 80 chars
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    adding links to publication (not in PubMed yet tho) and new cv.ra entry for reads
  • 1.3 lines changed: 29, context: html, text, full: html, text
    Reformatting Caltech tracks and description
  • 1.2 lines changed: 11, context: html, text, full: html, text
    adding boilerplate
• src/hg/makeDb/trackDb/human/hg18/wgEncodeCshlRnaSeq.html
  • 1.3 lines changed: 23, context: html, text, full: html, text
    wrapping at 80 chars
• src/hg/makeDb/trackDb/human/hg18/wgEncodeGisDnaPet.html
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    wrapping at 80 chars
• src/hg/makeDb/trackDb/human/hg18/wgEncodeGisPet.html
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    wrapping at 80 chars
• src/hg/makeDb/trackDb/human/hg18/wgEncodeRikenCage.html
  • 1.3 lines changed: 10, context: html, text, full: html, text
    adding standard text like Yale
  • 1.2 lines changed: 68, context: html, text, full: html, text
    last tracks for RIKEN
  • 1.1 lines changed: 134, context: html, text, full: html, text
    first draft of RIKEN doco
• src/hg/makeDb/trackDb/human/hg18/wgEncodeSunyalbanyRnaGeneChip.html
  • 1.9 lines changed: 20, context: html, text, full: html, text
    wrapping at 80 chars
  • 1.8 lines changed: 16, context: html, text, full: html, text
    adding data release policy, cell culture specs, and changing bold to italics
  • 1.7 lines changed: 2, context: html, text, full: html, text
    explain why a single view
  • 1.6 lines changed: 134, context: html, text, full: html, text
    tidying up description page
  • 1.5 lines changed: 2, context: html, text, full: html, text
    tidy up
  • 1.4 lines changed: 102, context: html, text, full: html, text
    adding links to pubmed and tidying up generally
• src/hg/makeDb/trackDb/human/hg18/wgEncodeUwDnaseSeq.html
  • 1.7 lines changed: 20, context: html, text, full: html, text
    wrapping at 80 chars
  • 1.6 lines changed: 5, context: html, text, full: html, text
    adding TARGET to HREF
  • 1.5 lines changed: 4, context: html, text, full: html, text
    add contact
  • 1.4 lines changed: 56, context: html, text, full: html, text
    standardising text
• src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleChIPseq.html
  • 1.31 lines changed: 1, context: html, text, full: html, text
    typo
  • 1.30 lines changed: 2, context: html, text, full: html, text
    Change downloads section
  • 1.29 lines changed: 2, context: html, text, full: html, text
    fixing citation errors
  • 1.28 lines changed: 15, context: html, text, full: html, text
    fixing citation errors
  • 1.27 lines changed: 20, context: html, text, full: html, text
    alphabetized references
  • 1.26 lines changed: 2, context: html, text, full: html, text
    clarified data release policy
  • 1.25 lines changed: 5, context: html, text, full: html, text
    Anti-spamasized the email
  • 1.24 lines changed: 8, context: html, text, full: html, text
    added a comma, added spaces betw numbers and units and lower-cased Kb to kb
  • 1.23 lines changed: 2, context: html, text, full: html, text
    fixed name in reference - converted to initial
  • 1.22 lines changed: 11, context: html, text, full: html, text
    1. Add link for qValue explanation. 2. Condense redundant info
  • 1.21 lines changed: 24, context: html, text, full: html, text
    Add reference to cell culture protocols. Expand and clean up methods
  • 1.20 lines changed: 2, context: html, text, full: html, text
    open terms page in new window
  • 1.19 lines changed: 35, context: html, text, full: html, text
    Removed extraction protocol section and replaced with refs.
  • 1.18 lines changed: 2, context: html, text, full: html, text
    Track vs. subtrack wording change.
  • 1.17 lines changed: 1, context: html, text, full: html, text
    Expand based on feedback
  • 1.16 lines changed: 23, context: html, text, full: html, text
    Corrected references and updated one in press.
  • 1.15 lines changed: 19, context: html, text, full: html, text
    Added ENCODE views verbiage, and specifics for Yale
  • 1.14 lines changed: 2, context: html, text, full: html, text
    typo
  • 1.13 lines changed: 9, context: html, text, full: html, text
    added Data Release Policy
  • 1.12 lines changed: 8, context: html, text, full: html, text
    Added Display Conventions and Configuration section
• src/hg/makeDb/trackDb/human/hg19/description.html
  • 1.1 lines changed: 129, context: html, text, full: html, text
    Initial set of files from makeGenomeDb.pl
• src/hg/makeDb/trackDb/human/hg19/gap.html
  • 1.1 lines changed: 63, context: html, text, full: html, text
    Initial set of files from makeGenomeDb.pl
• src/hg/makeDb/trackDb/human/hg19/gold.html
  • 1.1 lines changed: 22, context: html, text, full: html, text
    Initial set of files from makeGenomeDb.pl
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • 1.2 lines changed: 11, context: html, text, full: html, text
    Add haplotypeChain track
  • 1.1 lines changed: 20, context: html, text, full: html, text
    Initial set of files from makeGenomeDb.pl
• src/hg/makeDb/trackDb/lowelab/aerPer1/description.html
  • 1.11 lines changed: 3, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/aerPer1/trackDb.ra
  • 1.13 lines changed: 1, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/archFulg1/description.html
  • 1.8 lines changed: 38, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/archFulg1/trackDb.ra
  • 1.9 lines changed: 1, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/caldMaqu1/trackDb.ra
  • 1.10 lines changed: 1, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/cenaSymb1/description.html
  • 1.3 lines changed: 36, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/cenaSymb1/trackDb.ra
  • 1.8 lines changed: 1, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/desuKamc1/trackDb.ra
  • 1.3 lines changed: 11, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/ferrAcid1/description.html
  • 1.10 lines changed: 96, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/ferrAcid1/trackDb.ra
  • 1.11 lines changed: 1, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/halMar1/description.html
  • 1.13 lines changed: 36, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/halMar1/trackDb.ra
  • 1.13 lines changed: 1, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/haloHalo1/description.html
  • 1.9 lines changed: 35, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/haloHalo1/trackDb.ra
  • 1.16 lines changed: 1, context: html, text, full: html, text
    update StringDb link in track
• src/hg/makeDb/trackDb/lowelab/haloSali1/trackDb.ra
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• src/hg/makeDb/trackDb/lowelab/vibrVuln_CMCP6_1/description.html
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• src/hg/makeDb/trackDb/lowelab/vibrVuln_YJ016_1/description.html
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• src/hg/makeDb/trackDb/makefile
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    Adding hg19Haps
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    Adding hg19
• src/hg/makeDb/trackDb/marmoset/calJac1/nscanGene.html
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    added new credita to N-SCAN tracks
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    Adding trackDb entry for the multiz9way.
• src/hg/makeDb/trackDb/orangutan/ponAbe2/nscanGene.html
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    added new credita to N-SCAN tracks
• src/hg/makeDb/trackDbRaFormat/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/axtSplitByTarget/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/axtToMaf/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/axtToPsl/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/blastzPaper/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/blastzScripts/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/chainStats/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/chainStitch/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/chainStitchId/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/chainSwap/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/chainToAxt/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/chainToPsl/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/correctEst/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/exonMap/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/gcForBed/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/ggcPic/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/knownVsBlat/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/lavToAxt/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/lavToPsl/makefile
  • 1.12 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/libScan/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/mafCoverage/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/mafFetch/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/mafRanges/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/mafToAxt/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/mafToPsl/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/mafToXmfa/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/mousePoster/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/netChainSubset/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/netClass/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/netContigs/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/netFilter/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/netSplit/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/netStats/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/netSyntenic/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/netToAxt/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/netToBed/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/netToBedWithId/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/orthologBySynteny/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/phToPsl/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/pslMrnaCover/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/regionPicker/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/rikenBestInCluster/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/simpleChain/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/splitSim/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/subsetAxt/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/subsetTraces/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/whyConserved/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mouseStuff/xmfaToMaf/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/mrnaToGene/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/nci60/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgCeOrfToGene/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgClusterGenes/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgEmblProtLinks/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgExpDistance/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgGoAssociation/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgKnownToSuper/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgMapToGene/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgMapViaSwissProt/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgNear/expRatio.c
  • 1.42 lines changed: 9, context: html, text, full: html, text
    Changed the expRatio column type so that it doesn't need to have a knownTo* table, rather a "null" indicates that the microarray table uses knownGene identifiers.
• src/hg/near/hgNear/hgNearData/affyExonTissuesGs.html
  • 1.1 lines changed: 81, context: html, text, full: html, text
    Descriptions for the affy all exon columns.
• src/hg/near/hgNear/hgNearData/affyExonTissuesGsDistance.html
  • 1.1 lines changed: 54, context: html, text, full: html, text
    Descriptions for the affy all exon columns.
• src/hg/near/hgNear/hgNearData/columnDb.ra
  • 1.88 lines changed: 1, context: html, text, full: html, text
    Removed knownToKnown dummy table from affy all exon column.
• src/hg/near/hgNear/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgNearTest/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgNetDist/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgProtIdToGenePred/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgWormLinks/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/hgZfishEnsXRef/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/knownToHprd/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/near/pepPredToFa/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/addChrPsl/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/addMhcClones/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/addTopoToPrimers/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/affyAllExonGSColumn/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/agpAddCtgNamesAndGaps/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/agpNotInf/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/agpVsMap/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/bargeVsMap/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/bedFirstCodingExonSize/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/blatFilter/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/bridgeDif/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/bwTestRead/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/cJoinX/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/cacheMergedRanges/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/chromPosLookup/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/chromToPos/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/clonePos/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/clonesInAgp/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/clumpEst3/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/cmpOverlaps/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/codAbsAffyQuery/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/compilerError/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/createScaffoldsAgp/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/dupeFoo/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/dupedInTable/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/evalEndOverlaps/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/evalEnds/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/faFiltMasked/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/faTest/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/fakeBedGraph/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/fakeChromGraph/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/fakeHomozygousity/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/fakeLinkage/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/fakeSeqDiffs/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/findContigsWithClones/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/fixBlastTrack/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/fixEnsGtf/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/fixGdup/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/flagMhcClones/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/freen/makefile
  • 1.18 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/getHumanBrainRna/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/hgFreen/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/howBadNt/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/jingTestFoo/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/joinToPatch/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/kgName/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/labSheet/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/makeOrthoAtgTable/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/mhcToNt/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/missingTable/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/musAliAt/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/newClones/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/oo21Nts/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/padFile/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/patchDir/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/patchNtAgp/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/patchToAgp/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/protDat/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/pslCut/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/raPriority/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/randomEst/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/rangeGraph/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/rcvs/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/rmFromFinf/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/sangPairs/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/seqFromPsl/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/somePsls/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/spSize/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/splitNcbiFa/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/tempLift/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/tempLower/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/testBb/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/testCart/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/testIndex/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/testIntersect/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/testIxx/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/testSearch/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/testXap/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/tetDensity/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/tetFilter/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/trimFosmids/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/weedKnownBlastTab/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/oneShot/weedTab/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/orthoMap/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/overlapSelect/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/patCount/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pdbSP/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/perf/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/phyloGif/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/poster/finPoster/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/poster/foldDb/checkDupe/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/poster/foldDb/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/poster/foldGfx/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/blastRecipBest/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/dv2/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/fixAgp/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/fixMd/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/gadPos/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/getInterProFa/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/hmmPfamToTab/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgAliasKgXref/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgAliasM/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgAliasP/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgAliasRefseq/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgAttachKegg/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgBestMrna/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgBestMrna2/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgBestRef2/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgBioCyc0/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgBioCyc1/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgCheck/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgCheck2/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgGetCds/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgGetPep/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgPepMrna/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgPick/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgPick0/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgProtAlias/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgProtAliasNCBI/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgPutBack/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgSelect/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgUniq/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgXref/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/kgXref2/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/lib/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/omimCheckAv/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/omimParseAv/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/omimParseRec/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/pbCalDist/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/pbCalDist/pbCalDist.c
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    Removed an unused sr variable.
• src/hg/protein/pbCalDistGlobal/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/pbCalPi/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/pbCalResStd/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/pbCalResStdGlobal/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/pbGateway/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/pbGlobal/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/pbHgnc/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/pbTracks/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/pfamToGoRdf/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/pfamXref/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/rmKGPepMrna/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/scopCollapse/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spDbAddVarSplice/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spLoadPsiBlast/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spLoadRankProp/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spOrganism/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spTest/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spToDb/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spToProteins/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spToProteinsVar/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spToSpXref2/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spXref3/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spm3/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spm6/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/protein/spm7/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslAnal/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslCDnaFilter/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslCDnaGenomeMatch/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslCat/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslCheck/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslCluster/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslCoverage/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslCrudeCmp/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslDiff/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslDist/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslDropOverlap/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslFilter/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslFilterBadCdna/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslFilterPrimers/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslGlue/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslHisto/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslHitPercent/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslIntronsOnly/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslMaxMap/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslOneTwo/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslPairs/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslPartition/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslPretty/makefile
  • 1.20 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslPseudo/checkExp/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslPseudo/makefile
  • 1.15 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslQuickFilter/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslRecalcMatch/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslReps/makefile
  • 1.13 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslSelect/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslSimp/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslSomeRecords/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslSort/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslSortAcc/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslSplit/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslSplitOnTarget/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslStats/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslSwap/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslToBed/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslToChain/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslToFa/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslToPileup/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslUnpile/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/pslxToFa/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/qa/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/qaAgpToQacIdx/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/qaPushQ/makefile
  • 1.15 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/qaPushQ/qaPushQ.c
  • 1.113 lines changed: 1, context: html, text, full: html, text
    ENCODE is really making huge lists
• src/hg/qaToQac/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/qacAddGapIdx/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/qacAgpLift/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/qacIndex/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/qacToQa/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/qacToWig/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/raSort/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/randomPlacement/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/faToMaf/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafAddIRows/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafAddQRows/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafBedSubset/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafBreak/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafFastFrags/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafFilter/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafFrag/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafFrags/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafGene/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafIndex/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafMeFirst/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafOrder/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafOrtholog/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafSpeciesList/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafSpeciesSubset/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafSplit/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafSplitPos/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafStats/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafToAnc/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafToProtein/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/mafsInRegion/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/multizzy/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/segExpandToAnchors/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/segInfo/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/segSplitPairwise/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ratStuff/stageMultiz/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/recycleDb/bedDown/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/recycleDb/bedUp/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/relPairs/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/reviewSanity/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/rnaStructure/hgLoadRnaFold/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/rnaStructure/rnaFoldBig/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/rnaStructure/utrFa/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/rtdbWebUpdate/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/sage/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/sageVisCGI/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/scanRa/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/secure/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/semiNorm/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/sim4big/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/snp/details/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/snp/findSnpClusters/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/snp/fixedDiffs/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/snp/pbToAlleleCounts/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/snp/snpLoad/getOrthoSeq.pl
  • 1.1 lines changed: 57, context: html, text, full: html, text
    Adding script used by both snp129 and hapmapSnps orthologous allele tracks, to get the base value at the liftOver'd position in the other org.
• src/hg/snp/snpLoad/hapmapPhaseIIISummary.c
  • 1.1 lines changed: 253, context: html, text, full: html, text
    Adding hapmapPhaseIIISummary, which distills hapmapSnps* and hapmapAlleles* columns into a loading file for the hapmapPhaseIIISummary table, which is used to filter hapmapSnps subtracks in hgTracks.
• src/hg/snp/snpLoad/makefile
  • 1.47 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
  • 1.46 lines changed: 12, context: html, text, full: html, text
    Adding hapmapPhaseIIISummary, which distills hapmapSnps* and hapmapAlleles* columns into a loading file for the hapmapPhaseIIISummary table, which is used to filter hapmapSnps subtracks in hgTracks.
• src/hg/snp/snpMask/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/snp/snpValid/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/snp/tajD/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/snpException/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/spideyToPsl/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/splignToPsl/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/splitFa/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/splitFaIntoContigs/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/sqlToXml/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/synMap/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/tcga/lib/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/tcga/tcgaSubj/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/test/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/trfBig/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/tutorial/affyVsIlluminaCommon/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/tutorial/bigGene/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/tutorial/cgiAlign/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/tutorial/cgiPicture/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/tutorial/cgiTaxon/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsBadBed/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsCluster/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsEvFromBed/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsEvFromBorf/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsEvFromProtein/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsEvFromRna/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsGoodBed/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsOrfInfo/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsOrtho/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsPick/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsPredict/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsRaExceptions/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsRefBestEvOnly/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsRepick/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsSuspect/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsSvmInput/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsToGene/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txCdsWeed/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txCds/txInfoAssemble/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneAccession/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneAlias/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneAltProt/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneCanonical/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneCdsMap/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneColor/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneExplainUpdate1/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneExplainUpdate2/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneFromBed/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneProtAndRna/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneSeparateNoncoding/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGene/txGeneXref/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/agxToTxg/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/bedToTxEdges/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txAbFragFind/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txBedToGraph/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txOrtho/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txPslFilter/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txPslToBed/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txReadRa/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txWalk/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txgAddEvidence/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txgAnalyze/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txgGoodEdges/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txgToAgx/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txgToXml/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txGraph/txgTrim/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txPaper/txGeneBakeOff/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txPaper/txPaperPfam/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/txPaper/txPaperScop/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ultras/plateOfPrimers/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ultras/regionToPrimer3/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ultras/sqlAddCol/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ultras/ultraPcrRegions/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/ultras/ultraPlateau/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/uniqSize/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/updateStsInfo/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/agpCondense/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/automation/Encode.pm
  • 1.35 lines changed: 7, context: html, text, full: html, text
    check if a file is a tar
• src/hg/utils/automation/HgAutomate.pm
  • 1.23 lines changed: 4, context: html, text, full: html, text
    Forgot to commit some stuff.
  • 1.22 lines changed: 8, context: html, text, full: html, text
    Fixup specification of filesystem locations, and add -noGoldGapSplit option to makeGenomeDb
• src/hg/utils/automation/doHgNearBlastp.pl
  • 1.6 lines changed: 1, context: html, text, full: html, text
    change blastPath
• src/hg/utils/automation/doWindowMasker.pl
  • 1.7 lines changed: 6, context: html, text, full: html, text
    Forgot to commit some stuff.
• src/hg/utils/automation/makeDownloads.pl
  • 1.19 lines changed: 20, context: html, text, full: html, text
    Add -ignoreRepeatMasker flag to avoid looking for the *.out files
• src/hg/utils/automation/makeGenomeDb.pl
  • 1.20 lines changed: 17, context: html, text, full: html, text
    add -noGoldGapSplit option
• src/hg/utils/automation/makePushQSql.pl
  • 1.22 lines changed: 3, context: html, text, full: html, text
    Special case the 2micron chrom name on sacCer2
• src/hg/utils/bedExtendRanges/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/bedMergeExpData/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/bedWeedOverlapping/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/chromGraphFromBin/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/chromGraphToBin/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/coloredExonToBed/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/crTreeIndexBed/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/crTreeSearchBed/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/findCutters/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/gapToLift/gapToLift.c
  • 1.7 lines changed: 10, context: html, text, full: html, text
    Fixup counting of parts to be more accurate and a uniform %02d output
• src/hg/utils/gapToLift/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/liftUpBedFromTable/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/oligoMatch/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/positionalTblCheck/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/randFrag/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/reTraceUtils/reTraceFixMaf/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/refreshNamedSessionCustomTracks/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/repeatSelect/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/safePush/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/sqlPerf/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/toDev64/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/twoBitMask/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/wigAsciiAverageOverBed/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/utils/wigBedToStep/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/gensat/gensatFixFull/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/gensat/gensatFtpImages/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/gensat/gensatFtpList/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/gensat/gensatImageDownload/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/gensat/gensatRandomXml/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/gensat/vgLoadGensat/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/hgVisiGene/makefile
  • 1.24 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/jackson/mysqlEscape/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/knownToVisiGene/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/vgChangeContributors/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/vgGetText/makefile
  • 1.12 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/vgLoadAllen/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/vgLoadJax/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/vgLoadMahoney/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/vgLoadNibb/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/vgPatchJax/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/vgPrepImage/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/vgProbeTrack/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/vgRemoveSubmission/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/visiGeneLoad/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/visiGeneSearch/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/visiGene/visiGeneTest/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/wikiPlot/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/xmlCat/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/xmlToSql/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/zfishBacClonesandSts/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/zoo/alignToPsl/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/hg/zoo/pslToFa/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/idbQuery/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/inc/bigWig.h
  • 1.10 lines changed: 5, context: html, text, full: html, text
    Adding bigWigIntervalDump.
• src/inc/common.mk
  • 1.58 lines changed: 16, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/inc/https.h
  • 1.1 lines changed: 4, context: html, text, full: html, text
    adding https support
• src/inc/psl.h
  • 1.40 lines changed: 12, context: html, text, full: html, text
    added functions to get block ends
• src/index/bptForTwoBit/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/index/bptLookupStringToBits64/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/index/bptMakeStringToBits64/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/index/ixIxx/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/isPcr/gfPcr/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/isPcr/isPcr/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/isPcr/webPcr/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/jkOwnLib/tests/freen/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/lib/bwgQuery.c
  • 1.21 lines changed: 67, context: html, text, full: html, text
    Adding bigWigIntervalDump.
• src/lib/https.c
  • 1.1 lines changed: 183, context: html, text, full: html, text
    adding https support
• src/lib/makefile
  • 1.149 lines changed: 1, context: html, text, full: html, text
    adding https support
• src/lib/net.c
  • 1.70 lines changed: 17, context: html, text, full: html, text
    adding https support
• src/lib/tests/makefile
  • 1.33 lines changed: 12, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/lib/udc.c
  • 1.14 lines changed: 2, context: html, text, full: html, text
    adding https support
• src/olly/checkSeed/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/olly/makefile
  • 1.12 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/olly/ollySlow/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/olly/sampleToWig/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/addFinFinf/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/balancedTree/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/blat2p/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/burstClient/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/burstServer/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/clusterBox/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/commonLines/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/countClient/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/countServer/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/dateXmlCgi/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/echoServer/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/findContigsWithClones/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/foo2/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/formatFastaSeq/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/jccTest/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/jksql/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/killRabbit/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/mafFindZero/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/mafTest/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/motifConvert/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/mungeAuthors/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/newSang6/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/newStitch/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/newStitch2/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/newStitch3/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/newStitch4/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/opendirTest/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/rbIntTest/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/rbTest/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/rt1dTest/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/scrapeCruzBiotech/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/smoothWindow/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/tabTable/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/test/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/testBandExt/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/testCache/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/testPoly/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/testScripters/countLines/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/testScripters/wordUse/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/threadExp/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/oneShot/threadTime/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/broadHub/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/broadNode/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/broadNodeStart/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/dataSim/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/gensub2/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/para/makefile
  • 1.15 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/paraHubStop/makefile
  • 1.14 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/paraNodeStart/makefile
  • 1.13 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/paraNodeStatus/makefile
  • 1.13 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/paraNodeStop/makefile
  • 1.12 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/paraTestJob/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/parasol/parasol/makefile
  • 1.13 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/reformat/makeOrf2gene/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/reformat/wabToSt/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/bfastMafFix/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/bwtFind/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/bwtMake/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/bwtReverse/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/elandToSplat/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/i16Find/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/i16Make/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/itsaDump/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/itsaFind/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/itsaMake/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/shortRepeatFind/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/shortRepeatMerge/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/splat/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/splatCheck1/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/splatCheck2/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/splatMerge/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/splatTestSet/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/splatToEland/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/splixMake/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/streamer/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/sufaFind/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/sufaMake/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/sufaRepeatFind/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/sufxDump/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/sufxFind/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/shortReads/sufxMake/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/tracks/makefile
  • 1.14 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/aNotB/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/ave/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/bdfToGem/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/bedToBigBed/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/bestThreshold/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/bigBedSummary/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/bigBedToBed/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/bigWigSummary/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/bigWigToBedGraph/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/calc/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/callGraph/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/catDir/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/chainDist/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/chopFaLines/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/combineFiles/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/convolve/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/detab/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/dnsInfo/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/endsInLf/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/est2genomeToPsl/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faAlign/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faCat/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faCmp/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faFilter/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faFilterN/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faFlyBaseToUcsc/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faLowerToN/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faNcbiToUcsc/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faPolyASizes/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faRc/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faSimplify/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faSomeRecords/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faToFastq/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faToNib/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faToTab/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faToTwoBit/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faTrans/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faTrimPolyA/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/faTrimRead/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/fastqToFa/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/findMotif/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/gapSplit/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/genFedTableDef/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/geneStarts/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/gffPeek/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/greedyPack/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/gtfToGenePred/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/headRest/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/htmlCheck/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/lineCount/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/lineFileSplit/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/lineRange/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/maxEachRow/makefile
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    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/minEachRow/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/nibCheck/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/nt4Frag/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/pslPosTarget/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/pslToPslx/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/pslToXa/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/qa/getSplit.csh
  • 1.4 lines changed: 3, context: html, text, full: html, text
    tweaked usage statement
• src/utils/qa/weeklybld/buildCvsReports.csh
  • 1.17 lines changed: 18, context: html, text, full: html, text
    fixing to copy the kent src over to each new release because cvs-reports-d does a cvs update, not cvs checkout
• src/utils/qa/weeklybld/buildEnv.csh
  • 1.50 lines changed: 3, context: html, text, full: html, text
    v202 final build
• src/utils/raFromTab/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/raMerge/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/raToLines/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/raToSvmLight/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/raToTab/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/randomLines/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/rowsToCols/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/scaffoldFaToAgp/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/sets/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/shuffleLines/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/spacedToTab/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/splitFile/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/splitFileByColumn/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/stringify/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/subColumn/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/tTestTwo/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/tableSum/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/tailLines/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/textHist2/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/textHistogram/makefile
  • 1.12 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/tickToDate/makefile
  • 1.8 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/timing/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/twoBitInfo/makefile
  • 1.6 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/twoBitToFa/makefile
  • 1.11 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/udcCleanup/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/venn/makefile
  • 1.9 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/vulgarToPsl/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/weedLines/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/wgetMd5/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/wigAsciiCrunch/makefile
  • 1.4 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/wigAsciiToBinary/makefile
  • 1.10 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/wigSort/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/wigTestMaker/makefile
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/utils/wigToBigWig/makefile
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/webBlat/makefile
  • 1.5 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL
• src/weblet/bottleneck/makefile
  • 1.7 lines changed: 1, context: html, text, full: html, text
    Modifications to make system to support optional external libraries, motivated by need for SSL