Reorganize Makefile, allowing MacOS & Linux build from a single makefile.

.gitignore

@@ -0,0 +1,3 @@
+.idea/
+
+*.o

README.md

@@ -28,6 +28,38 @@ If you prefer to using newly released GTEx v8 eQTL annotation for analysis, plea
 +  [Multi-tissue eQTL annotation with hg38 position ID](https://drive.google.com/open?id=1kfH_CffxyCtZcx3z7k63rIARNidLv1_P) 
 +  [Multi-tissue eQTL annotation with rs ID](https://drive.google.com/open?id=1rSaHenk8xOFtQo7VuDZevRkjUz6iwuj0)
 
+## Building fastenloc
+You will need a working C++ compiler and `make` already installed and configured. Installing additional library 
+dependencies is described below.
+### Debian family (Ubuntu)
+```shell
+sudo apt install libgsl-dev libboost-iostreams-dev zlib1g-dev
+cd src
+make
+```
+
+### RHEL family (CentOS, Rocky)
+```shell
+sudo yum install boost-devel gsl-devel zlib-devel
+cd src
+make
+```
+
+### Other Linux, or building libraries from source:
+* [GNU Scientific Library](https://www.gnu.org/software/gsl/)
+* [ZLib](https://zlib.net/)
+* [Boost iostreams](https://www.boost.org/doc/libs/)
+
+### MacOS
+You will want [Homebrew](https://brew.sh/) installed to easily install libraries. It's possible to build all of the necessary
+library dependencies from scratch if you prefer.
+
+```shell
+brew install gsl boost libomp
+cd src
+make
+```
+
 
 ## Citation
 

src/Makefile

@@ -1,12 +1,30 @@
-main: main.o controller.o sigCluster.o
-	g++ -fopenmp -O3 main.o controller.o sigCluster.o  -lm -lgsl -lgslcblas -lboost_iostreams -lz  -o fastenloc
-static: main.o controller.o sigCluster.o
-	g++ -fopenmp -O3 main.o controller.o sigCluster.o  -lm -lgsl -lgslcblas -lboost_iostreams -lz  -static -o fastenloc.static
-main.o: main.cc
-	g++ -c  main.cc
+CXX=g++
+CXXFLAGS+=-O3 -Wall
+LDLIBS+=-lm -lgsl -lgslcblas -lboost_iostreams -lz
+
+UNAME_S := $(shell uname -s)
+
+# MacOS / Homebrew specific configuration
+ifeq ($(UNAME_S),Darwin)
+	CPPFLAGS+=-isystem /opt/homebrew/include # Mac libraries installed via Homebrew
+	CPPFLAGS+=-Xpreprocessor -fopenmp # Mac openmp
+	LDFLAGS+=-L/opt/homebrew/lib # Homebrew library location
+	LDLIBS+=-lomp #only need lomp on Mac OS
+endif
+
+
+objects = main.o controller.o sigCluster.o
+
+all: fastenloc
+
+fastenloc: $(objects)
+	$(CXX) $(CPPFLAGS) $(CXXFLAGS) $(LDFLAGS) $(objects) $(LDLIBS) -o fastenloc
+static: $(objects)
+	$(CXX) $(CPPFLAGS) $(CXXFLAGS) $(LDFLAGS) $(objects) $(LDLIBS) -static -o fastenloc.static
+
 controller.o: controller.cc controller.h
-	g++ -fopenmp   -c  controller.cc
 sigCluster.o: sigCluster.h sigCluster.cc
-	g++ -c sigCluster.cc 
+
+.PHONY: clean
 clean:
 	rm *.o fastenloc