htswanalysis/src/Makefile

   1 CPPFLAGS=-g -Wall -O3 -I/opt/local/include
   2 LDFLAGS=-lgsl -lgslcblas -lm -L/opt/local/lib -L./SRLib/
   3
   4 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
   5
   6 all: $(TARGETS)
   7
   8 ValidationDesign/refine_peaks: ValidationDesign/refine_peaks.cpp
   9         cd ValidationDesign && $(MAKE)
  10
  11 Methhylseq/Methylseq_Analysis: Methylseq/Methylseq_Analysis.cpp
  12         cd Methylseq && $(MAKE)
  13
  14 GetReadsInSnps/getReadsInSnps: GetReadsInSnps/getReadsInSnps.cpp
  15         cd GetReadsInSnps && $(MAKE)
  16
  17 profile_reads_bedgraph: profile_reads_bedgraph.cpp SRLib/loci.cpp SRLib/util.cpp
  18
  19 install: $(TARGETS)
  20         cp $^ ../bin/
  21
  22 clean:
  23         rm -f $(TARGETS)
  24         for f in $(TARGETS); do rm -rf $$f.dSYM; done;