correct Make files

PWD=$(shell pwd)

all: $(EXEC)

all: reference

louvain:

reference:

	echo "generating cellranger references"

	cellranger mkref --genome=1.2.0 --fasta=genome-1.2.0.fa --genes=genes-1.2.0.gtf

	rm -rf genome-1.2.0.fa genes-1.2.0.gtf

# Generic rules

##########################################

%.o: %.cpp %.h

	$(CXX) -o  $@ -c $< $(CXXFLAGS)

%.o: %.cpp

	$(CXX) -o $@ -c $< $(CXXFLAGS)

clean:

	echo "moving fasta and gtf from cellranger reference"

	mv 1.2.0/fasta/genome.fa genome-1.2.0.fa