Added new profile program to make a bedgraph file. This is partically the result...

[htsworkflow.git] / htswanalysis / src / Makefile

diff --git a/htswanalysis/src/Makefile b/htswanalysis/src/Makefile
index dbeb0669ffd52374183bc150ba4ace57598b2dab..bbbaf5f86b3597a2f541cd0eb88dc8ce2bf8aa6d 100644 (file)
--- a/htswanalysis/src/Makefile
+++ b/htswanalysis/src/Makefile
@@ -1,5 +1,5 @@
 CPPFLAGS=-g -Wall -O3 -I/opt/local/include
-LDFLAGS=-lgsl -lgslcblas -lm -L/opt/local/lib
+LDFLAGS=-lgsl -lgslcblas -lm -L/opt/local/lib -L./SRLib/
 
 TARGETS=complexity_count qPCR profile_reads_against_features profile_reads_wig count_reads_in_peaks GetReadsInSnps/getReadsInSnps ValidationDesign/refine_peaks Methylseq/Methylseq_Analysis count_reads_in_regions profile_reads_bedgraph
 
@@ -14,6 +14,8 @@ Methhylseq/Methylseq_Analysis: Methylseq/Methylseq_Analysis.cpp
 GetReadsInSnps/getReadsInSnps: GetReadsInSnps/getReadsInSnps.cpp
        cd GetReadsInSnps && $(MAKE)
 
+profile_reads_bedgraph: profile_reads_bedgraph.cpp SRLib/loci.cpp SRLib/util.cpp
+
 install: $(TARGETS)
        cp $^ ../bin/