--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/Makefile	Thu Dec 19 10:24:45 2019 -0500
@@ -0,0 +1,47 @@
+#!/bin/bash
+
+CC=g++
+CFLAGS= -ansi -O5 -Wall
+LDFLAGS= -ansi -lm -Wall
+EXEC=bin/louvain_community bin/louvain_convert bin/louvain_hierarchy
+OBJ1= louvain/graph_binary.o louvain/community.o
+OBJ2= louvain/graph.o
+
+DNA_DB=databases/dna_database_masked.fasta.nhr
+PROT_DB=re_databases/protein_database_viridiplantae_v3.0.fasta.phr
+TRNA_DB=databases/tRNA_database.fasta.nhr
+
+
+all: $(EXEC) $(DNA_DB) $(PROT_DB) $(TRNA_DB)
+
+bin/louvain_community : $(OBJ1) louvain/main_community.o
+	$(CC) -o $@ $^ $(LDFLAGS)
+
+bin/louvain_convert : $(OBJ2) louvain/main_convert.o
+	$(CC) -o $@ $^ $(LDFLAGS)
+
+bin/louvain_hierarchy : louvain/main_hierarchy.o
+	$(CC) -o $@ $^ $(LDFLAGS)
+
+$(DNA_DB) : databases/dna_database_masked.fasta
+	makeblastdb -in databases/dna_database_masked.fasta -out databases/dna_database_masked.fasta -dbtype nucl
+
+$(TRNA_DB) : databases/tRNA_database.fasta
+	makeblastdb -in databases/tRNA_database.fasta -out databases/tRNA_database.fasta -dbtype nucl
+
+$(PROT_DB) : config.py
+	./fetch_databases.sh
+
+dna_database: $(DFASTA)  
+##########################################
+# Generic rules
+##########################################
+
+%.o: %.cpp %.h
+	$(CC) -o $@ -c $< $(CFLAGS)
+
+%.o: %.cpp
+	$(CC) -o $@ -c $< $(CFLAGS)
+
+clean:
+	rm -f *.o *~ $(EXEC)