38e1bbe7c81547be3306dc87e44bc08e3cf4cd97
braney
  Wed Apr 8 11:24:17 2015 -0700
first cut at little feet mode

diff --git src/hg/lib/makefile src/hg/lib/makefile
index db36ebf..bc296a7 100644
--- src/hg/lib/makefile
+++ src/hg/lib/makefile
@@ -1,42 +1,42 @@
 include ../../inc/localEnvironment.mk
 include ../../inc/common.mk
 XINC = -I$(MYSQLINC)
 
-O = acemblyClass.o affyAllExonProbe.o affyAtlas.o affy10KDetails.o affy120KDetails.o \
+O = acemblyClass.o adjacency.o affyAllExonProbe.o affyAtlas.o affy10KDetails.o affy120KDetails.o \
     affyOffset.o affyPairs.o agp.o agpFrag.o agpGap.o alignSeqSizes.o altGraph.o \
     altGraphX.o ancientRref.o \
     annoFormatVep.o annoGratorGpVar.o annoGrateWigDb.o \
     annoStreamDb.o annoStreamDbFactorSource.o annoStreamDbKnownGene.o annoStreamWig.o \
     api.o atomDb.o  axtInfo.o \
     axtLib.o bactigPos.o hgBam.o baseMaskCommon.o bdgpExprLink.o bdgpGeneInfo.o \
     bed.o bed5FloatScore.o bed5Pval.o bed6FloatScore.o  bed8Attrs.o bed12Source.o \
     bed12wSeq.o bedCart.o bgiGeneInfo.o bgiGeneSnp.o bgiSnp.o bigBedFind.o \
     bigGenePred.o bioImage.o \
     blastTab.o blastzNet.o blatServers.o borf.o borkPseudoHom.o botDelay.o\
     cart.o cartDb.o cartJson.o cartTrackDb.o cdsEvidence.o cdsOrtho.o cdsPick.o cdsSpec.o \
     ccdsInfo.o ccdsNotes.o ccdsGeneMap.o celeraCoverage.o \
     celeraDupPositive.o cgapSage/cgapSage.o cgapSage/cgapSageLib.o cgh.o chainCart.o \
     chainDb.o chainLink.o chainNet.o chainNetDbLoad.o \
     chicken13kInfo.o chromBins.o chr18deletions.o \
     chromGraph.o chromGraphFactory.o chromInfo.o chromInserts.o chromKeeper.o \
     clonePos.o codeBlast.o codeBlastScore.o cogs.o cogsxra.o columnInfo.o \
     contigAcc.o coordConv.o \
     cnpIafrate.o cnpIafrate2.o cnpLocke.o cnpRedon.o cnpSebat.o cnpSebat2.o \
     cnpSharp2.o cnpSharpCutoff.o cnpSharpSample.o cnpSharp.o \
     cpgIsland.o cpgIslandExt.o ctgPos.o ctgPos2.o \
-    bedDetail.o cgiApoptosis.o \
+    bedDetail.o cgiApoptosis.o customAdjacency.o \
     customFactory.o customPp.o customTrack.o cutter.o cv.o cytoBand.o \
     dbDb.o dbRIP.o dbSnpRs.o defaultDb.o delConrad2.o delHinds2.o \
     dgv.o dgvPlus.o dless.o dnaMotifSql.o dnaMarkovSql.o dnaProbe.o \
     dv.o dvBed.o dvXref2.o \
     easyGene.o ec.o ecCode.o ecAttribute.o ecAttributeCode.o \
     encode/encodeErge.o encode/encodeErgeHssCellLines.o \
     encode/encodeHapMapAlleleFreq.o encode/encodeIndels.o encode/encodePeak.o \
     encode/encodeRegionInfo.o encode/encodeRegionInfoCustom.o encode/encodeRna.o \
     encode/encodeStanfordPromoters.o encode/encodeStanfordPromotersAverage.o \
     encode/pairedTagAlign.o encode/peptideMapping.o encode/tagAlign.o  \
     encode/wgEncodeGencodeAttrs.o encode/wgEncodeGencodeExonSupport.o \
     encode/wgEncodeGencodeEntrezGene.o encode/wgEncodeGencodeTag.o  \
     encode/wgEncodeGencodePdb.o encode/wgEncodeGencodePubMed.o \
     encode/wgEncodeGencodeRefSeq.o encode/wgEncodeGencodeGeneSource.o encode/wgEncodeGencodeTranscriptSource.o \
     encode/wgEncodeGencodeTranscriptSupport.o encode/wgEncodeGencodeTranscriptionSupportLevel.o \