src/hg/near/hgNetDist/makefile 1.11
1.11 2009/03/10 00:34:20 galt
Modifications to make system to support optional external libraries, motivated by need for SSL
Index: src/hg/near/hgNetDist/makefile
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/near/hgNetDist/makefile,v
retrieving revision 1.10
retrieving revision 1.11
diff -b -B -U 1000000 -r1.10 -r1.11
--- src/hg/near/hgNetDist/makefile 9 Apr 2007 20:42:08 -0000 1.10
+++ src/hg/near/hgNetDist/makefile 10 Mar 2009 00:34:20 -0000 1.11
@@ -1,73 +1,73 @@
include ../../../inc/common.mk
-L = $(MYSQLLIBS) -lm
+L += $(MYSQLLIBS) -lm
MYLIBDIR = ../../../lib/$(MACHTYPE)
MYLIBS = $(MYLIBDIR)/jkhgap.a $(MYLIBDIR)/jkweb.a
A = hgNetDist
O = $A.o
all: hgNetDist hgLoadNetDist hprdP2p
hgNetDist: $O $(MYLIBS)
${CC} ${COPT} ${CFLAGS} -o ${BINDIR}/$A $O $(MYLIBS) $L
${STRIP} ${BINDIR}/$A${EXE}
hgLoadNetDist: hgLoadNetDist.o $(MYLIBS)
${CC} ${COPT} ${CFLAGS} -o ${BINDIR}/hgLoadNetDist hgLoadNetDist.o $(MYLIBS) $L
${STRIP} ${BINDIR}/hgLoadNetDist${EXE}
hprdP2p: hprdP2p.o $(MYLIBS)
${CC} ${COPT} ${CFLAGS} -o ${BINDIR}/hprdP2p hprdP2p.o $(MYLIBS) $L
${STRIP} ${BINDIR}/hprdP2p${EXE}
hprdP2pHg18: ${BINDIR}/hprdP2p${EXE}
hprdP2p -verbose=2 \
/cluster/data/hg18/p2p/hprd/FLAT_FILES/BINARY_PROTEIN_PROTEIN_INTERACTIONS.txt \
/cluster/data/hg18/p2p/hprd/FLAT_FILES/PROTEIN_COMPLEXES.txt \
/cluster/data/hg18/p2p/hprd/hprd.p2p
hprdHg18:
hgNetDist -verbose=2 -weighted -threshold=2 \
/cluster/data/hg18/p2p/hprd/hprd.p2p \
/cluster/data/hg18/p2p/hprd/hprd.pathLengths
hgLoadNetDist /cluster/data/hg18/p2p/hprd/hprd.pathLengths hg18 humanHprdP2P \
-sqlRemap="select distinct value, name from knownToHprd"
vidalHg18:
hgNetDist -verbose=2 -skipFirst -threshold=2 \
/cluster/data/hg18/p2p/vidal/humanVidal.p2p \
/cluster/data/hg18/p2p/vidal/humanVidal.pathLengths
hgLoadNetDist /cluster/data/hg18/p2p/vidal/humanVidal.pathLengths hg18 humanVidalP2P \
-sqlRemap="select distinct locusLinkID, kgID from refLink, kgXref where refLink.mrnaAcc = kgXref.mRNA"
wankerHg18:
hgNetDist -verbose=2 -skipFirst -threshold=2 \
/cluster/data/hg18/p2p/wanker/humanWanker.p2p \
/cluster/data/hg18/p2p/wanker/humanWanker.pathLengths
hgLoadNetDist /cluster/data/hg18/p2p/wanker/humanWanker.pathLengths hg18 humanWankerP2P \
-sqlRemap="select distinct locusLinkID, kgID from refLink, kgXref where refLink.mrnaAcc = kgXref.mRNA"
yeast:
hgNetDist -verbose=2 -skipFirst -threshold=3 \
/cluster/data/sacCer1/p2p/yeastP2P.tab \
/cluster/data/sacCer1/p2p/yeastP2P.pathLengths
hgLoadNetDist /cluster/data/sacCer1/p2p/yeastP2P.pathLengths sacCer1 yeastP2P
fly:
hgNetDist -verbose=2 -skipFirst -threshold=2 \
/cluster/data/dm2/p2p/flyP2P.tab \
/cluster/data/dm2/p2p/flyP2P.pathLengths
hgLoadNetDist /cluster/data/dm2/p2p/flyP2P.pathLengths dm2 flyP2P \
-sqlRemap="select fbgn,name from flyBase2004Xref"
worm:
hgNetDist -skipFirst -threshold=2 \
/cluster/data/ce2/p2p/wormP2P.tab \
/cluster/data/ce2/p2p/wormP2P.pathLengths
hgLoadNetDist /cluster/data/ce2/p2p/wormP2P.pathLengths ce2 wormP2P
clean:
rm -f $O hprdP2p.o