Added code to identify snps and update the gneome accordingly. This code has an insid...

[htsworkflow.git] / htswanalysis / src / GetReadsInSnps / Makefile

diff --git a/htswanalysis/src/GetReadsInSnps/Makefile b/htswanalysis/src/GetReadsInSnps/Makefile
index 236a59dc46b26b668d5ab7c328a10c5f474ddcc5..f8c348851cffc8beaaaf6b77a29c2ff9e8891ac0 100644 (file)
--- a/htswanalysis/src/GetReadsInSnps/Makefile
+++ b/htswanalysis/src/GetReadsInSnps/Makefile
@@ -1,4 +1,10 @@
-CPPFLAGS=-g -Wall -O3  -I/opt/local/include
+CPPFLAGS=-g -Wall -I/opt/local/include
+#LDFLAGS=-lgsl -lgslcblas -lm -lduma -L/opt/local/lib
+#CPPFLAGS=-g -Wall -O3 -I/opt/local/include
 LDFLAGS=-lgsl -lgslcblas -lm -L/opt/local/lib
 
-all: getReadsInSnps
+all: patch_genome getReadsInSnps getRegionConsensus
+
+patch_genome: patch_genome.cpp chrom_list.cpp util.cpp
+
+getRegionConsensus: getRegionConsensus.cpp chrom_list.cpp util.cpp