b3616e92700f6c92003de6d424ec741b0eb7323f
markd
  Fri Nov 11 13:35:17 2011 -0800
basic import and changes for gencode V9;
diff --git src/hg/lib/makefile src/hg/lib/makefile
index 0fafedb..c7588d2 100644
--- src/hg/lib/makefile
+++ src/hg/lib/makefile
@@ -23,30 +23,31 @@
     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 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/wgEncodeGencodeTag.o  \
     encode/wgEncodeGencodePdb.o encode/wgEncodeGencodePubMed.o \
     encode/wgEncodeGencodeRefSeq.o encode/wgEncodeGencodeGeneSource.o encode/wgEncodeGencodeTranscriptSource.o \
     encode/wgEncodeGencodeTranscriptSupport.o encode/wgEncodeGencodeUniProt.o \
+    encode/wgEncodeGencodePolyAFeature.o encode/wgEncodeGencodeAnnotationRemark.o \
     encode/encodeExp.o \
     ensFace.o ensInfo.o ensPhusionBlast.o ensXRefZfish.o \
     est3.o estOrientInfo.o \
     estPair.o exoFish.o expData.o expRecord.o exprBed.o \
     fbTables.o featureBits.o fileUi.o findKGAlias.o findKGProtAlias.o fishClones.o \
     flyBase2004Xref.o \
     flyBaseSwissProt.o flyreg.o flyreg2.o gbExtFile.o gbWarn.o gbMiscDiff.o gbProtAnn.o gcPercent.o gbSeq.o \
     genbank.o gencodeGeneClass.o gencodeIntron.o genMapDb.o \
     geneBands.o geneCheck.o geneCheckDetails.o geneCheckWidget.o \
     geneGraph.o genePred.o genePredReader.o geneSimilarities.o genoLay.o \
     genomeRangeTreeFile.o genomicDups.o \
     genomicSuperDups.o ggCluster.o ggDbIo.o ggDump.o ggGraph.o ggMrnaAli.o \
     ggTypes.o glDbRep.o goa.o goaPart.o googleAnalytics.o \
     growthCondition.o grp.o gwasCatalog.o \
     hapmapAllelesOrtho.o hapmapAllelesSummary.o hapmapPhaseIIISummary.o \