Added RLCSA index option

[SXSI/TextCollection.git] / incbwt / Makefile

diff --git a/incbwt/Makefile b/incbwt/Makefile
index 6b004e6..d5a2877 100644 (file)
--- a/incbwt/Makefile
+++ b/incbwt/Makefile
@@ -1,25 +1,94 @@
 CC = g++
-CPPFLAGS = -Wall -O3
-OBJS = rlcsa.o rlcsa_builder.o sasamples.o bits/bitvector.o bits/deltavector.o bits/rlevector.o bits/vectors.o misc/parameters.o misc/utils.o qsufsort/qsufsort.o
 
+# Use 64-bit integers in a 64-bit environment.
+# SIZE_FLAGS = -DMASSIVE_DATA_RLCSA
 
-all: library
+# Parallelism is supported by either libstdc++ Parallel Mode or MCSTL.
+# PARALLEL_FLAGS = -DMULTITHREAD_SUPPORT -D_GLIBCXX_PARALLEL -fopenmp
+# MCSTL_ROOT = /fs-3/d/jltsiren/suds/mcstl
+# PARALLEL_FLAGS = -DMULTITHREAD_SUPPORT -I$(MCSTL_ROOT)/c++ -fopenmp
 
-library: $(OBJS)
-       ar rc rlcsa.a $(OBJS)
+# Vectors using nibble codes instead of delta codes are faster, but they also
+# take up more space.
+# VECTOR_FLAGS = -DUSE_NIBBLE_VECTORS
+
+#CPPFLAGS = -Wall -g $(SIZE_FLAGS) $(PARALLEL_FLAGS) $(VECTOR_FLAGS)
+CPPFLAGS = -Wall -O3 $(SIZE_FLAGS) $(PARALLEL_FLAGS) $(VECTOR_FLAGS)
+OBJS = rlcsa.o rlcsa_builder.o sasamples.o lcpsamples.o bits/array.o bits/bitvector.o bits/deltavector.o bits/rlevector.o bits/nibblevector.o misc/parameters.o misc/utils.o qsufsort/qsufsort.o
+
+VPATH = bits:misc:utils
+
+
+default: rlcsa.a
+
+
+rlcsa.a: $(OBJS)
+       ar rcs rlcsa.a $(OBJS)
 
 depend:
-       g++ -MM *.cpp bits/*.cpp misc/*.cpp qsufsort/*.c > dependencies.mk
+       g++ -MM *.cpp bits/*.cpp misc/*.cpp qsufsort/*.c utils/*.cpp > dependencies.mk
+
+rlcsa_test: rlcsa_test.o rlcsa.a
+       $(CC) $(CPPFLAGS) -o rlcsa_test rlcsa_test.o rlcsa.a
+
+lcp_test: lcp_test.o rlcsa.a
+       $(CC) $(CPPFLAGS) -o lcp_test lcp_test.o rlcsa.a
+
+parallel_build: parallel_build.o rlcsa.a
+       $(CC) $(CPPFLAGS) -o parallel_build parallel_build.o rlcsa.a
+
+build_rlcsa: build_rlcsa.o rlcsa.a
+       $(CC) $(CPPFLAGS) -o build_rlcsa build_rlcsa.o rlcsa.a
+
+locate_test: locate_test.o rlcsa.a
+       $(CC) $(CPPFLAGS) -o locate_test locate_test.o rlcsa.a
+
+display_test: display_test.o rlcsa.a
+       $(CC) $(CPPFLAGS) -o display_test display_test.o rlcsa.a
+
+read_bwt: read_bwt.o rlcsa.a
+       $(CC) $(CPPFLAGS) -o read_bwt read_bwt.o rlcsa.a
+
+extract_sequence: extract_sequence.o rlcsa.a
+       $(CC) $(CPPFLAGS) -o extract_sequence extract_sequence.o rlcsa.a
+
+rlcsa_grep: rlcsa_grep.o rlcsa.a
+       $(CC) $(CPPFLAGS) -o rlcsa_grep rlcsa_grep.o rlcsa.a
+
+build_plcp: build_plcp.o rlcsa.a
+       $(CC) $(CPPFLAGS) -o build_plcp build_plcp.o rlcsa.a
+
+sample_lcp: sample_lcp.o rlcsa.a
+       $(CC) $(CPPFLAGS) -o sample_lcp sample_lcp.o rlcsa.a
+
+extract_text: extract_text.o
+       $(CC) $(CPPFLAGS) -o utils/extract_text extract_text.o
+
+convert_patterns: convert_patterns.o
+       $(CC) $(CPPFLAGS) -o utils/convert_patterns convert_patterns.o misc/utils.o
+
+split_text: split_text.o
+       $(CC) $(CPPFLAGS) -o utils/split_text split_text.o misc/utils.o
 
-update:
-       cp ../rlcsa.* ../rlcsa_builder.* ../sasamples.* .
-       cp ../bits/* bits/
-       cp ../misc/* misc/
-       cp ../qsufsort/* qsufsort/
+genpatterns: genpatterns.c
+       gcc -O3 -Wall -o utils/genpatterns utils/genpatterns.c
 
 clean:
-       rm -f rlcsa.a
-       rm -f $(OBJS)
+       rm -f rlcsa.a rlcsa_test lcp_test parallel_build
+       rm -f build_rlcsa locate_test display_test read_bwt extract_sequence rlcsa_grep build_plcp sample_lcp
+       rm -f utils/extract_text utils/convert_patterns utils/split_text
+       rm -f *.o bits/*.o misc/*.o qsufsort/*.o utils/*.o
 
+package:
+       mkdir rlcsa
+       mkdir rlcsa/bits rlcsa/misc rlcsa/qsufsort rlcsa/utils
+       cp LICENSE Makefile README dependencies.mk *.cpp *.h rlcsa
+       cp bits/*.cpp bits/*.h rlcsa/bits
+       cp misc/*.cpp misc/*.h rlcsa/misc
+       cp qsufsort/*.c qsufsort/*.h rlcsa/qsufsort
+       cp utils/*.cpp utils/*.py rlcsa/utils
+       tar cfz rlcsa.tgz rlcsa
+       rm -r rlcsa/*
+       rmdir rlcsa
 
 include dependencies.mk