JPRED-2 Add sources of all binaries (except alscript) to Git

[jpred.git] / sources / jnet / Makefile

diff --git a/sources/jnet/Makefile b/sources/jnet/Makefile
new file mode 100644 (file)
index 0000000..08d0cb9
--- /dev/null
+++ b/sources/jnet/Makefile
@@ -0,0 +1,39 @@
+NNOBJECTS=pssma1.o pssma2.o pssmb1.o pssmb2.o hmm1.o hmm2.o psisol25.o hmmsol25.o psisol0.o psisol5.o hmmsol0.o hmmsol5.o
+OBJECTS=$(NNOBJECTS) jnet.o ./cmdline/cmdline.o
+
+CC = gcc
+
+# Normal compile
+CFLAGS = -Wall -pedantic -O3 -ffast-math -fomit-frame-pointer
+       #-O0 -ggdb3
+LDFLAGS = -lm -Icmdline
+       # -pg -lefence
+
+all: jnet
+
+./cmdline/cmdline.o: ./cmdline/cmdline.ggo
+       $(MAKE) -C cmdline
+
+jnet.c: ./cmdline/cmdline.o
+
+jnet: $(OBJECTS)
+       $(CC) $(CFLAGS) $(OBJECTS) -o jnet $(LDFLAGS)
+
+.PHONY: clean veryclean test
+
+clean:
+       rm -f $(OBJECTS) jnet test.jnet
+
+veryclean: clean
+       $(MAKE) -C cmdline clean
+
+test: test.jnet
+
+# Test by running prediction on a single known sequence
+# and check for any difference between the prediction and the known result
+test.jnet: jnet
+       @echo "Test 1: d1b65a_"
+       ./jnet --concise --hmm test/d1b65a_.hmm --pssm test/d1b65a_.pssm --test 2> /dev/null > test.jnet
+       diff -q test/d1b65a_.jnet test.jnet
+       rm -f test.jnet
+       @echo "Test passed! Jnet binary is valid!"