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select data structure added

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fc_botelho 2009-03-14 23:24:05 +00:00
parent 8203d56952
commit 7e265956c9
20 changed files with 838 additions and 195 deletions
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36
src/Makefile
View File

@ -60,7 +60,7 @@ libcmph_la_LIBADD =
am_libcmph_la_OBJECTS = hash.lo jenkins_hash.lo vstack.lo vqueue.lo \ am_libcmph_la_OBJECTS = hash.lo jenkins_hash.lo vstack.lo vqueue.lo \
graph.lo cmph.lo cmph_structs.lo chm.lo bmz.lo bmz8.lo bdz.lo \ graph.lo cmph.lo cmph_structs.lo chm.lo bmz.lo bmz8.lo bdz.lo \
bdz_ph.lo buffer_manager.lo buffer_entry.lo brz.lo fch.lo \ bdz_ph.lo buffer_manager.lo buffer_entry.lo brz.lo fch.lo \
fch_buckets.lo fch_buckets.lo select.lo
libcmph_la_OBJECTS = $(am_libcmph_la_OBJECTS) libcmph_la_OBJECTS = $(am_libcmph_la_OBJECTS)
libcmph_la_LINK = $(LIBTOOL) --tag=CC $(AM_LIBTOOLFLAGS) \ libcmph_la_LINK = $(LIBTOOL) --tag=CC $(AM_LIBTOOLFLAGS) \
$(LIBTOOLFLAGS) --mode=link $(CCLD) $(AM_CFLAGS) $(CFLAGS) \ $(LIBTOOLFLAGS) --mode=link $(CCLD) $(AM_CFLAGS) $(CFLAGS) \
@ -98,7 +98,7 @@ AUTOMAKE = ${SHELL} /home/fbotelho/papers/conferences/djamel/cmph/missing --run
AWK = gawk AWK = gawk
CC = gcc CC = gcc
CCDEPMODE = depmode=gcc3 CCDEPMODE = depmode=gcc3
CFLAGS = -O3 CFLAGS = -O3 -Wall -Werror -lm
CPP = gcc -E CPP = gcc -E
CPPFLAGS = CPPFLAGS =
CYGPATH_W = echo CYGPATH_W = echo
@ -120,8 +120,8 @@ INSTALL_PROGRAM = ${INSTALL}
INSTALL_SCRIPT = ${INSTALL} INSTALL_SCRIPT = ${INSTALL}
INSTALL_STRIP_PROGRAM = $(install_sh) -c -s INSTALL_STRIP_PROGRAM = $(install_sh) -c -s
LD = /usr/bin/ld -m elf_x86_64 LD = /usr/bin/ld -m elf_x86_64
LDFLAGS = -lm LDFLAGS =
LIBM = -lm LIBM =
LIBOBJS = LIBOBJS =
LIBS = LIBS =
LIBTOOL = $(SHELL) $(top_builddir)/libtool LIBTOOL = $(SHELL) $(top_builddir)/libtool
@ -201,26 +201,13 @@ top_builddir = ..
top_srcdir = .. top_srcdir = ..
lib_LTLIBRARIES = libcmph.la lib_LTLIBRARIES = libcmph.la
include_HEADERS = cmph.h cmph_types.h include_HEADERS = cmph.h cmph_types.h
libcmph_la_SOURCES = debug.h\ libcmph_la_SOURCES = hash.c jenkins_hash.c\
bitbool.h\ vstack.c vqueue.c\
cmph_types.h\ graph.c cmph.c cmph_structs.c\
hash.h hash_state.h hash.c\ chm.c bmz.c bmz8.c bdz.c bdz_ph.c\
jenkins_hash.h jenkins_hash.c\ buffer_manager.c buffer_entry.c\
vstack.h vstack.c\ brz.c fch.c fch_buckets.c \
vqueue.h vqueue.c\ select.c
graph.h graph.c\
cmph.h cmph.c\
cmph_structs.h cmph_structs.c\
chm.h chm_structs.h chm.c\
bmz.h bmz_structs.h bmz.c\
bmz8.h bmz8_structs.h bmz8.c\
bdz.h bdz_structs.h bdz.c\
bdz_ph.h bdz_structs_ph.h bdz_ph.c\
buffer_manager.h buffer_manager.c\
buffer_entry.h buffer_entry.c\
brz.h brz_structs.h brz.c\
fch.h fch_structs.h fch.c\
fch_buckets.h fch_buckets.c
libcmph_la_LDFLAGS = -version-info 0:0:0 libcmph_la_LDFLAGS = -version-info 0:0:0
cmph_SOURCES = main.c wingetopt.h wingetopt.c cmph_SOURCES = main.c wingetopt.h wingetopt.c
@ -341,6 +328,7 @@ include ./$(DEPDIR)/graph.Plo
include ./$(DEPDIR)/hash.Plo include ./$(DEPDIR)/hash.Plo
include ./$(DEPDIR)/jenkins_hash.Plo include ./$(DEPDIR)/jenkins_hash.Plo
include ./$(DEPDIR)/main.Po include ./$(DEPDIR)/main.Po
include ./$(DEPDIR)/select.Plo
include ./$(DEPDIR)/vqueue.Plo include ./$(DEPDIR)/vqueue.Plo
include ./$(DEPDIR)/vstack.Plo include ./$(DEPDIR)/vstack.Plo
include ./$(DEPDIR)/wingetopt.Po include ./$(DEPDIR)/wingetopt.Po

27
src/Makefile.am
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@ -1,26 +1,13 @@
bin_PROGRAMS = cmph bin_PROGRAMS = cmph
lib_LTLIBRARIES = libcmph.la lib_LTLIBRARIES = libcmph.la
include_HEADERS = cmph.h cmph_types.h include_HEADERS = cmph.h cmph_types.h
libcmph_la_SOURCES = debug.h\ libcmph_la_SOURCES = hash.c jenkins_hash.c\
bitbool.h\ vstack.c vqueue.c\
cmph_types.h\ graph.c cmph.c cmph_structs.c\
hash.h hash_state.h hash.c\ chm.c bmz.c bmz8.c bdz.c bdz_ph.c\
jenkins_hash.h jenkins_hash.c\ buffer_manager.c buffer_entry.c\
vstack.h vstack.c\ brz.c fch.c fch_buckets.c \
vqueue.h vqueue.c\ select.c
graph.h graph.c\
cmph.h cmph.c\
cmph_structs.h cmph_structs.c\
chm.h chm_structs.h chm.c\
bmz.h bmz_structs.h bmz.c\
bmz8.h bmz8_structs.h bmz8.c\
bdz.h bdz_structs.h bdz.c\
bdz_ph.h bdz_structs_ph.h bdz_ph.c\
buffer_manager.h buffer_manager.c\
buffer_entry.h buffer_entry.c\
brz.h brz_structs.h brz.c\
fch.h fch_structs.h fch.c\
fch_buckets.h fch_buckets.c
libcmph_la_LDFLAGS = -version-info 0:0:0 libcmph_la_LDFLAGS = -version-info 0:0:0

30
src/Makefile.in
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@ -60,7 +60,7 @@ libcmph_la_LIBADD =
am_libcmph_la_OBJECTS = hash.lo jenkins_hash.lo vstack.lo vqueue.lo \ am_libcmph_la_OBJECTS = hash.lo jenkins_hash.lo vstack.lo vqueue.lo \
graph.lo cmph.lo cmph_structs.lo chm.lo bmz.lo bmz8.lo bdz.lo \ graph.lo cmph.lo cmph_structs.lo chm.lo bmz.lo bmz8.lo bdz.lo \
bdz_ph.lo buffer_manager.lo buffer_entry.lo brz.lo fch.lo \ bdz_ph.lo buffer_manager.lo buffer_entry.lo brz.lo fch.lo \
fch_buckets.lo fch_buckets.lo select.lo
libcmph_la_OBJECTS = $(am_libcmph_la_OBJECTS) libcmph_la_OBJECTS = $(am_libcmph_la_OBJECTS)
libcmph_la_LINK = $(LIBTOOL) --tag=CC $(AM_LIBTOOLFLAGS) \ libcmph_la_LINK = $(LIBTOOL) --tag=CC $(AM_LIBTOOLFLAGS) \
$(LIBTOOLFLAGS) --mode=link $(CCLD) $(AM_CFLAGS) $(CFLAGS) \ $(LIBTOOLFLAGS) --mode=link $(CCLD) $(AM_CFLAGS) $(CFLAGS) \
@ -201,26 +201,13 @@ top_builddir = @top_builddir@
top_srcdir = @top_srcdir@ top_srcdir = @top_srcdir@
lib_LTLIBRARIES = libcmph.la lib_LTLIBRARIES = libcmph.la
include_HEADERS = cmph.h cmph_types.h include_HEADERS = cmph.h cmph_types.h
libcmph_la_SOURCES = debug.h\ libcmph_la_SOURCES = hash.c jenkins_hash.c\
bitbool.h\ vstack.c vqueue.c\
cmph_types.h\ graph.c cmph.c cmph_structs.c\
hash.h hash_state.h hash.c\ chm.c bmz.c bmz8.c bdz.c bdz_ph.c\
jenkins_hash.h jenkins_hash.c\ buffer_manager.c buffer_entry.c\
vstack.h vstack.c\ brz.c fch.c fch_buckets.c \
vqueue.h vqueue.c\ select.c
graph.h graph.c\
cmph.h cmph.c\
cmph_structs.h cmph_structs.c\
chm.h chm_structs.h chm.c\
bmz.h bmz_structs.h bmz.c\
bmz8.h bmz8_structs.h bmz8.c\
bdz.h bdz_structs.h bdz.c\
bdz_ph.h bdz_structs_ph.h bdz_ph.c\
buffer_manager.h buffer_manager.c\
buffer_entry.h buffer_entry.c\
brz.h brz_structs.h brz.c\
fch.h fch_structs.h fch.c\
fch_buckets.h fch_buckets.c
libcmph_la_LDFLAGS = -version-info 0:0:0 libcmph_la_LDFLAGS = -version-info 0:0:0
cmph_SOURCES = main.c wingetopt.h wingetopt.c cmph_SOURCES = main.c wingetopt.h wingetopt.c
@ -341,6 +328,7 @@ distclean-compile:
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/hash.Plo@am__quote@ @AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/hash.Plo@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/jenkins_hash.Plo@am__quote@ @AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/jenkins_hash.Plo@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/main.Po@am__quote@ @AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/main.Po@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/select.Plo@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/vqueue.Plo@am__quote@ @AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/vqueue.Plo@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/vstack.Plo@am__quote@ @AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/vstack.Plo@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/wingetopt.Po@am__quote@ @AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/wingetopt.Po@am__quote@

42
src/bdz.c
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@ -468,27 +468,28 @@ int bdz_dump(cmph_t *mphf, FILE *fd)
{ {
char *buf = NULL; char *buf = NULL;
cmph_uint32 buflen; cmph_uint32 buflen;
register cmph_uint32 nbytes;
bdz_data_t *data = (bdz_data_t *)mphf->data; bdz_data_t *data = (bdz_data_t *)mphf->data;
__cmph_dump(mphf, fd); __cmph_dump(mphf, fd);
hash_state_dump(data->hl, &buf, &buflen); hash_state_dump(data->hl, &buf, &buflen);
DEBUGP("Dumping hash state with %u bytes to disk\n", buflen); DEBUGP("Dumping hash state with %u bytes to disk\n", buflen);
fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd);
fwrite(buf, (size_t)buflen, (size_t)1, fd); nbytes = fwrite(buf, (size_t)buflen, (size_t)1, fd);
free(buf); free(buf);
fwrite(&(data->n), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->n), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(&(data->r), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->r), sizeof(cmph_uint32), (size_t)1, fd);
cmph_uint32 sizeg = ceil(data->n/4.0); cmph_uint32 sizeg = ceil(data->n/4.0);
fwrite(data->g, sizeof(cmph_uint8)*sizeg, (size_t)1, fd); nbytes = fwrite(data->g, sizeof(cmph_uint8)*sizeg, (size_t)1, fd);
fwrite(&(data->k), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->k), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(&(data->b), sizeof(cmph_uint8), (size_t)1, fd); nbytes = fwrite(&(data->b), sizeof(cmph_uint8), (size_t)1, fd);
fwrite(&(data->ranktablesize), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->ranktablesize), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(data->ranktable, sizeof(cmph_uint32)*(data->ranktablesize), (size_t)1, fd); nbytes = fwrite(data->ranktable, sizeof(cmph_uint32)*(data->ranktablesize), (size_t)1, fd);
#ifdef DEBUG #ifdef DEBUG
cmph_uint32 i; cmph_uint32 i;
fprintf(stderr, "G: "); fprintf(stderr, "G: ");
@ -502,33 +503,34 @@ void bdz_load(FILE *f, cmph_t *mphf)
{ {
char *buf = NULL; char *buf = NULL;
cmph_uint32 buflen, sizeg; cmph_uint32 buflen, sizeg;
register cmph_uint32 nbytes;
bdz_data_t *bdz = (bdz_data_t *)malloc(sizeof(bdz_data_t)); bdz_data_t *bdz = (bdz_data_t *)malloc(sizeof(bdz_data_t));
DEBUGP("Loading bdz mphf\n"); DEBUGP("Loading bdz mphf\n");
mphf->data = bdz; mphf->data = bdz;
fread(&buflen, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&buflen, sizeof(cmph_uint32), (size_t)1, f);
DEBUGP("Hash state has %u bytes\n", buflen); DEBUGP("Hash state has %u bytes\n", buflen);
buf = (char *)malloc((size_t)buflen); buf = (char *)malloc((size_t)buflen);
fread(buf, (size_t)buflen, (size_t)1, f); nbytes = fread(buf, (size_t)buflen, (size_t)1, f);
bdz->hl = hash_state_load(buf, buflen); bdz->hl = hash_state_load(buf, buflen);
free(buf); free(buf);
DEBUGP("Reading m and n\n"); DEBUGP("Reading m and n\n");
fread(&(bdz->n), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(bdz->n), sizeof(cmph_uint32), (size_t)1, f);
fread(&(bdz->m), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(bdz->m), sizeof(cmph_uint32), (size_t)1, f);
fread(&(bdz->r), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(bdz->r), sizeof(cmph_uint32), (size_t)1, f);
sizeg = ceil(bdz->n/4.0); sizeg = ceil(bdz->n/4.0);
bdz->g = (cmph_uint8 *)calloc((size_t)(sizeg), sizeof(cmph_uint8)); bdz->g = (cmph_uint8 *)calloc((size_t)(sizeg), sizeof(cmph_uint8));
fread(bdz->g, sizeg*sizeof(cmph_uint8), (size_t)1, f); nbytes = fread(bdz->g, sizeg*sizeof(cmph_uint8), (size_t)1, f);
fread(&(bdz->k), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(bdz->k), sizeof(cmph_uint32), (size_t)1, f);
fread(&(bdz->b), sizeof(cmph_uint8), (size_t)1, f); nbytes = fread(&(bdz->b), sizeof(cmph_uint8), (size_t)1, f);
fread(&(bdz->ranktablesize), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(bdz->ranktablesize), sizeof(cmph_uint32), (size_t)1, f);
bdz->ranktable = (cmph_uint32 *)calloc((size_t)bdz->ranktablesize, sizeof(cmph_uint32)); bdz->ranktable = (cmph_uint32 *)calloc((size_t)bdz->ranktablesize, sizeof(cmph_uint32));
fread(bdz->ranktable, sizeof(cmph_uint32)*(bdz->ranktablesize), (size_t)1, f); nbytes = fread(bdz->ranktable, sizeof(cmph_uint32)*(bdz->ranktablesize), (size_t)1, f);
#ifdef DEBUG #ifdef DEBUG
cmph_uint32 i = 0; cmph_uint32 i = 0;

26
src/bdz_ph.c
View File

@ -432,20 +432,21 @@ int bdz_ph_dump(cmph_t *mphf, FILE *fd)
char *buf = NULL; char *buf = NULL;
cmph_uint32 buflen; cmph_uint32 buflen;
cmph_uint32 sizeg = 0; cmph_uint32 sizeg = 0;
register cmph_uint32 nbytes;
bdz_ph_data_t *data = (bdz_ph_data_t *)mphf->data; bdz_ph_data_t *data = (bdz_ph_data_t *)mphf->data;
__cmph_dump(mphf, fd); __cmph_dump(mphf, fd);
hash_state_dump(data->hl, &buf, &buflen); hash_state_dump(data->hl, &buf, &buflen);
DEBUGP("Dumping hash state with %u bytes to disk\n", buflen); DEBUGP("Dumping hash state with %u bytes to disk\n", buflen);
fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd);
fwrite(buf, (size_t)buflen, (size_t)1, fd); nbytes = fwrite(buf, (size_t)buflen, (size_t)1, fd);
free(buf); free(buf);
fwrite(&(data->n), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->n), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(&(data->r), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->r), sizeof(cmph_uint32), (size_t)1, fd);
sizeg = ceil(data->n/5.0); sizeg = ceil(data->n/5.0);
fwrite(data->g, sizeof(cmph_uint8)*sizeg, (size_t)1, fd); nbytes = fwrite(data->g, sizeof(cmph_uint8)*sizeg, (size_t)1, fd);
#ifdef DEBUG #ifdef DEBUG
cmph_uint32 i; cmph_uint32 i;
@ -461,26 +462,27 @@ void bdz_ph_load(FILE *f, cmph_t *mphf)
char *buf = NULL; char *buf = NULL;
cmph_uint32 buflen; cmph_uint32 buflen;
cmph_uint32 sizeg = 0; cmph_uint32 sizeg = 0;
register cmph_uint32 nbytes;
bdz_ph_data_t *bdz_ph = (bdz_ph_data_t *)malloc(sizeof(bdz_ph_data_t)); bdz_ph_data_t *bdz_ph = (bdz_ph_data_t *)malloc(sizeof(bdz_ph_data_t));
DEBUGP("Loading bdz_ph mphf\n"); DEBUGP("Loading bdz_ph mphf\n");
mphf->data = bdz_ph; mphf->data = bdz_ph;
fread(&buflen, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&buflen, sizeof(cmph_uint32), (size_t)1, f);
DEBUGP("Hash state has %u bytes\n", buflen); DEBUGP("Hash state has %u bytes\n", buflen);
buf = (char *)malloc((size_t)buflen); buf = (char *)malloc((size_t)buflen);
fread(buf, (size_t)buflen, (size_t)1, f); nbytes = fread(buf, (size_t)buflen, (size_t)1, f);
bdz_ph->hl = hash_state_load(buf, buflen); bdz_ph->hl = hash_state_load(buf, buflen);
free(buf); free(buf);
DEBUGP("Reading m and n\n"); DEBUGP("Reading m and n\n");
fread(&(bdz_ph->n), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(bdz_ph->n), sizeof(cmph_uint32), (size_t)1, f);
fread(&(bdz_ph->m), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(bdz_ph->m), sizeof(cmph_uint32), (size_t)1, f);
fread(&(bdz_ph->r), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(bdz_ph->r), sizeof(cmph_uint32), (size_t)1, f);
sizeg = ceil(bdz_ph->n/5.0); sizeg = ceil(bdz_ph->n/5.0);
bdz_ph->g = (cmph_uint8 *)calloc((size_t)sizeg, sizeof(cmph_uint8)); bdz_ph->g = (cmph_uint8 *)calloc((size_t)sizeg, sizeof(cmph_uint8));
fread(bdz_ph->g, sizeg*sizeof(cmph_uint8), (size_t)1, f); nbytes = fread(bdz_ph->g, sizeg*sizeof(cmph_uint8), (size_t)1, f);
/* #ifdef DEBUG /* #ifdef DEBUG
cmph_uint32 i; cmph_uint32 i;

31
src/bmz.c
View File

@ -448,26 +448,27 @@ int bmz_dump(cmph_t *mphf, FILE *fd)
cmph_uint32 buflen; cmph_uint32 buflen;
cmph_uint32 two = 2; //number of hash functions cmph_uint32 two = 2; //number of hash functions
bmz_data_t *data = (bmz_data_t *)mphf->data; bmz_data_t *data = (bmz_data_t *)mphf->data;
register cmph_uint32 nbytes;
__cmph_dump(mphf, fd); __cmph_dump(mphf, fd);
fwrite(&two, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&two, sizeof(cmph_uint32), (size_t)1, fd);
hash_state_dump(data->hashes[0], &buf, &buflen); hash_state_dump(data->hashes[0], &buf, &buflen);
DEBUGP("Dumping hash state with %u bytes to disk\n", buflen); DEBUGP("Dumping hash state with %u bytes to disk\n", buflen);
fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd);
fwrite(buf, (size_t)buflen, (size_t)1, fd); nbytes = fwrite(buf, (size_t)buflen, (size_t)1, fd);
free(buf); free(buf);
hash_state_dump(data->hashes[1], &buf, &buflen); hash_state_dump(data->hashes[1], &buf, &buflen);
DEBUGP("Dumping hash state with %u bytes to disk\n", buflen); DEBUGP("Dumping hash state with %u bytes to disk\n", buflen);
fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd);
fwrite(buf, (size_t)buflen, (size_t)1, fd); nbytes = fwrite(buf, (size_t)buflen, (size_t)1, fd);
free(buf); free(buf);
fwrite(&(data->n), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->n), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(data->g, sizeof(cmph_uint32)*(data->n), (size_t)1, fd); nbytes = fwrite(data->g, sizeof(cmph_uint32)*(data->n), (size_t)1, fd);
#ifdef DEBUG #ifdef DEBUG
cmph_uint32 i; cmph_uint32 i;
fprintf(stderr, "G: "); fprintf(stderr, "G: ");
@ -484,31 +485,31 @@ void bmz_load(FILE *f, cmph_t *mphf)
cmph_uint32 buflen; cmph_uint32 buflen;
cmph_uint32 i; cmph_uint32 i;
bmz_data_t *bmz = (bmz_data_t *)malloc(sizeof(bmz_data_t)); bmz_data_t *bmz = (bmz_data_t *)malloc(sizeof(bmz_data_t));
register cmph_uint32 nbytes;
DEBUGP("Loading bmz mphf\n"); DEBUGP("Loading bmz mphf\n");
mphf->data = bmz; mphf->data = bmz;
fread(&nhashes, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&nhashes, sizeof(cmph_uint32), (size_t)1, f);
bmz->hashes = (hash_state_t **)malloc(sizeof(hash_state_t *)*(nhashes + 1)); bmz->hashes = (hash_state_t **)malloc(sizeof(hash_state_t *)*(nhashes + 1));
bmz->hashes[nhashes] = NULL; bmz->hashes[nhashes] = NULL;
DEBUGP("Reading %u hashes\n", nhashes); DEBUGP("Reading %u hashes\n", nhashes);
for (i = 0; i < nhashes; ++i) for (i = 0; i < nhashes; ++i)
{ {
hash_state_t *state = NULL; hash_state_t *state = NULL;
fread(&buflen, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&buflen, sizeof(cmph_uint32), (size_t)1, f);
DEBUGP("Hash state has %u bytes\n", buflen); DEBUGP("Hash state has %u bytes\n", buflen);
buf = (char *)malloc((size_t)buflen); buf = (char *)malloc((size_t)buflen);
fread(buf, (size_t)buflen, (size_t)1, f); nbytes = fread(buf, (size_t)buflen, (size_t)1, f);
state = hash_state_load(buf, buflen); state = hash_state_load(buf, buflen);
bmz->hashes[i] = state; bmz->hashes[i] = state;
free(buf); free(buf);
} }
DEBUGP("Reading m and n\n"); DEBUGP("Reading m and n\n");
fread(&(bmz->n), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(bmz->n), sizeof(cmph_uint32), (size_t)1, f);
fread(&(bmz->m), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(bmz->m), sizeof(cmph_uint32), (size_t)1, f);
bmz->g = (cmph_uint32 *)malloc(sizeof(cmph_uint32)*bmz->n); bmz->g = (cmph_uint32 *)malloc(sizeof(cmph_uint32)*bmz->n);
fread(bmz->g, bmz->n*sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(bmz->g, bmz->n*sizeof(cmph_uint32), (size_t)1, f);
#ifdef DEBUG #ifdef DEBUG
fprintf(stderr, "G: "); fprintf(stderr, "G: ");
for (i = 0; i < bmz->n; ++i) fprintf(stderr, "%u ", bmz->g[i]); for (i = 0; i < bmz->n; ++i) fprintf(stderr, "%u ", bmz->g[i]);

30
src/bmz8.c
View File

@ -458,26 +458,27 @@ int bmz8_dump(cmph_t *mphf, FILE *fd)
cmph_uint32 buflen; cmph_uint32 buflen;
cmph_uint8 two = 2; //number of hash functions cmph_uint8 two = 2; //number of hash functions
bmz8_data_t *data = (bmz8_data_t *)mphf->data; bmz8_data_t *data = (bmz8_data_t *)mphf->data;
register cmph_uint32 nbytes;
__cmph_dump(mphf, fd); __cmph_dump(mphf, fd);
fwrite(&two, sizeof(cmph_uint8), (size_t)1, fd); nbytes = fwrite(&two, sizeof(cmph_uint8), (size_t)1, fd);
hash_state_dump(data->hashes[0], &buf, &buflen); hash_state_dump(data->hashes[0], &buf, &buflen);
DEBUGP("Dumping hash state with %u bytes to disk\n", buflen); DEBUGP("Dumping hash state with %u bytes to disk\n", buflen);
fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd);
fwrite(buf, (size_t)buflen, (size_t)1, fd); nbytes = fwrite(buf, (size_t)buflen, (size_t)1, fd);
free(buf); free(buf);
hash_state_dump(data->hashes[1], &buf, &buflen); hash_state_dump(data->hashes[1], &buf, &buflen);
DEBUGP("Dumping hash state with %u bytes to disk\n", buflen); DEBUGP("Dumping hash state with %u bytes to disk\n", buflen);
fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd);
fwrite(buf, (size_t)buflen, (size_t)1, fd); nbytes = fwrite(buf, (size_t)buflen, (size_t)1, fd);
free(buf); free(buf);
fwrite(&(data->n), sizeof(cmph_uint8), (size_t)1, fd); nbytes = fwrite(&(data->n), sizeof(cmph_uint8), (size_t)1, fd);
fwrite(&(data->m), sizeof(cmph_uint8), (size_t)1, fd); nbytes = fwrite(&(data->m), sizeof(cmph_uint8), (size_t)1, fd);
fwrite(data->g, sizeof(cmph_uint8)*(data->n), (size_t)1, fd); nbytes = fwrite(data->g, sizeof(cmph_uint8)*(data->n), (size_t)1, fd);
#ifdef DEBUG #ifdef DEBUG
fprintf(stderr, "G: "); fprintf(stderr, "G: ");
for (i = 0; i < data->n; ++i) fprintf(stderr, "%u ", data->g[i]); for (i = 0; i < data->n; ++i) fprintf(stderr, "%u ", data->g[i]);
@ -492,32 +493,33 @@ void bmz8_load(FILE *f, cmph_t *mphf)
char *buf = NULL; char *buf = NULL;
cmph_uint32 buflen; cmph_uint32 buflen;
cmph_uint8 i; cmph_uint8 i;
register cmph_uint32 nbytes;
bmz8_data_t *bmz8 = (bmz8_data_t *)malloc(sizeof(bmz8_data_t)); bmz8_data_t *bmz8 = (bmz8_data_t *)malloc(sizeof(bmz8_data_t));
DEBUGP("Loading bmz8 mphf\n"); DEBUGP("Loading bmz8 mphf\n");
mphf->data = bmz8; mphf->data = bmz8;
fread(&nhashes, sizeof(cmph_uint8), (size_t)1, f); nbytes = fread(&nhashes, sizeof(cmph_uint8), (size_t)1, f);
bmz8->hashes = (hash_state_t **)malloc(sizeof(hash_state_t *)*(nhashes + 1)); bmz8->hashes = (hash_state_t **)malloc(sizeof(hash_state_t *)*(nhashes + 1));
bmz8->hashes[nhashes] = NULL; bmz8->hashes[nhashes] = NULL;
DEBUGP("Reading %u hashes\n", nhashes); DEBUGP("Reading %u hashes\n", nhashes);
for (i = 0; i < nhashes; ++i) for (i = 0; i < nhashes; ++i)
{ {
hash_state_t *state = NULL; hash_state_t *state = NULL;
fread(&buflen, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&buflen, sizeof(cmph_uint32), (size_t)1, f);
DEBUGP("Hash state has %u bytes\n", buflen); DEBUGP("Hash state has %u bytes\n", buflen);
buf = (char *)malloc((size_t)buflen); buf = (char *)malloc((size_t)buflen);
fread(buf, (size_t)buflen, (size_t)1, f); nbytes = fread(buf, (size_t)buflen, (size_t)1, f);
state = hash_state_load(buf, buflen); state = hash_state_load(buf, buflen);
bmz8->hashes[i] = state; bmz8->hashes[i] = state;
free(buf); free(buf);
} }
DEBUGP("Reading m and n\n"); DEBUGP("Reading m and n\n");
fread(&(bmz8->n), sizeof(cmph_uint8), (size_t)1, f); nbytes = fread(&(bmz8->n), sizeof(cmph_uint8), (size_t)1, f);
fread(&(bmz8->m), sizeof(cmph_uint8), (size_t)1, f); nbytes = fread(&(bmz8->m), sizeof(cmph_uint8), (size_t)1, f);
bmz8->g = (cmph_uint8 *)malloc(sizeof(cmph_uint8)*bmz8->n); bmz8->g = (cmph_uint8 *)malloc(sizeof(cmph_uint8)*bmz8->n);
fread(bmz8->g, bmz8->n*sizeof(cmph_uint8), (size_t)1, f); nbytes = fread(bmz8->g, bmz8->n*sizeof(cmph_uint8), (size_t)1, f);
#ifdef DEBUG #ifdef DEBUG
fprintf(stderr, "G: "); fprintf(stderr, "G: ");
for (i = 0; i < bmz8->n; ++i) fprintf(stderr, "%u ", bmz8->g[i]); for (i = 0; i < bmz8->n; ++i) fprintf(stderr, "%u ", bmz8->g[i]);

55
src/brz.c
View File

@ -227,6 +227,7 @@ static int brz_gen_mphf(cmph_config_t *mph)
cmph_uint32 *buffer_h0 = NULL; cmph_uint32 *buffer_h0 = NULL;
cmph_uint32 nflushes = 0; cmph_uint32 nflushes = 0;
cmph_uint32 h0; cmph_uint32 h0;
register cmph_uint32 nbytes;
FILE * tmp_fd = NULL; FILE * tmp_fd = NULL;
buffer_manager_t * buff_manager = NULL; buffer_manager_t * buff_manager = NULL;
char *filename = NULL; char *filename = NULL;
@ -280,7 +281,7 @@ static int brz_gen_mphf(cmph_config_t *mph)
for(i = 0; i < nkeys_in_buffer; i++) for(i = 0; i < nkeys_in_buffer; i++)
{ {
memcpy(&keylen1, buffer + keys_index[i], sizeof(keylen1)); memcpy(&keylen1, buffer + keys_index[i], sizeof(keylen1));
fwrite(buffer + keys_index[i], (size_t)1, keylen1 + sizeof(keylen1), tmp_fd); nbytes = fwrite(buffer + keys_index[i], (size_t)1, keylen1 + sizeof(keylen1), tmp_fd);
} }
nkeys_in_buffer = 0; nkeys_in_buffer = 0;
memory_usage = 0; memory_usage = 0;
@ -340,7 +341,7 @@ static int brz_gen_mphf(cmph_config_t *mph)
for(i = 0; i < nkeys_in_buffer; i++) for(i = 0; i < nkeys_in_buffer; i++)
{ {
memcpy(&keylen1, buffer + keys_index[i], sizeof(keylen1)); memcpy(&keylen1, buffer + keys_index[i], sizeof(keylen1));
fwrite(buffer + keys_index[i], (size_t)1, keylen1 + sizeof(keylen1), tmp_fd); nbytes = fwrite(buffer + keys_index[i], (size_t)1, keylen1 + sizeof(keylen1), tmp_fd);
} }
nkeys_in_buffer = 0; nkeys_in_buffer = 0;
memory_usage = 0; memory_usage = 0;
@ -359,12 +360,12 @@ static int brz_gen_mphf(cmph_config_t *mph)
fprintf(stderr, "\nMPHF generation \n"); fprintf(stderr, "\nMPHF generation \n");
} }
/* Starting to dump to disk the resultant MPHF: __cmph_dump function */ /* Starting to dump to disk the resultant MPHF: __cmph_dump function */
fwrite(cmph_names[CMPH_BRZ], (size_t)(strlen(cmph_names[CMPH_BRZ]) + 1), (size_t)1, brz->mphf_fd); nbytes = fwrite(cmph_names[CMPH_BRZ], (size_t)(strlen(cmph_names[CMPH_BRZ]) + 1), (size_t)1, brz->mphf_fd);
fwrite(&(brz->m), sizeof(brz->m), (size_t)1, brz->mphf_fd); nbytes = fwrite(&(brz->m), sizeof(brz->m), (size_t)1, brz->mphf_fd);
fwrite(&(brz->c), sizeof(double), (size_t)1, brz->mphf_fd); nbytes = fwrite(&(brz->c), sizeof(double), (size_t)1, brz->mphf_fd);
fwrite(&(brz->algo), sizeof(brz->algo), (size_t)1, brz->mphf_fd); nbytes = fwrite(&(brz->algo), sizeof(brz->algo), (size_t)1, brz->mphf_fd);
fwrite(&(brz->k), sizeof(cmph_uint32), (size_t)1, brz->mphf_fd); // number of MPHFs nbytes = fwrite(&(brz->k), sizeof(cmph_uint32), (size_t)1, brz->mphf_fd); // number of MPHFs
fwrite(brz->size, sizeof(cmph_uint8)*(brz->k), (size_t)1, brz->mphf_fd); nbytes = fwrite(brz->size, sizeof(cmph_uint8)*(brz->k), (size_t)1, brz->mphf_fd);
//tmp_fds = (FILE **)calloc(nflushes, sizeof(FILE *)); //tmp_fds = (FILE **)calloc(nflushes, sizeof(FILE *));
buff_manager = buffer_manager_new(brz->memory_availability, nflushes); buff_manager = buffer_manager_new(brz->memory_availability, nflushes);
@ -473,7 +474,7 @@ static int brz_gen_mphf(cmph_config_t *mph)
break; break;
default: assert(0); default: assert(0);
} }
fwrite(bufmphf, (size_t)buflenmphf, (size_t)1, brz->mphf_fd); nbytes = fwrite(bufmphf, (size_t)buflenmphf, (size_t)1, brz->mphf_fd);
free(bufmphf); free(bufmphf);
bufmphf = NULL; bufmphf = NULL;
cmph_config_destroy(config); cmph_config_destroy(config);
@ -557,17 +558,18 @@ int brz_dump(cmph_t *mphf, FILE *fd)
brz_data_t *data = (brz_data_t *)mphf->data; brz_data_t *data = (brz_data_t *)mphf->data;
char *buf = NULL; char *buf = NULL;
cmph_uint32 buflen; cmph_uint32 buflen;
register cmph_uint32 nbytes;
DEBUGP("Dumping brzf\n"); DEBUGP("Dumping brzf\n");
// The initial part of the MPHF have already been dumped to disk during construction // The initial part of the MPHF have already been dumped to disk during construction
// Dumping h0 // Dumping h0
hash_state_dump(data->h0, &buf, &buflen); hash_state_dump(data->h0, &buf, &buflen);
DEBUGP("Dumping hash state with %u bytes to disk\n", buflen); DEBUGP("Dumping hash state with %u bytes to disk\n", buflen);
fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd);
fwrite(buf, (size_t)buflen, (size_t)1, fd); nbytes = fwrite(buf, (size_t)buflen, (size_t)1, fd);
free(buf); free(buf);
// Dumping m and the vector offset. // Dumping m and the vector offset.
fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(data->offset, sizeof(cmph_uint32)*(data->k), (size_t)1, fd); nbytes = fwrite(data->offset, sizeof(cmph_uint32)*(data->k), (size_t)1, fd);
return 1; return 1;
} }
@ -575,16 +577,17 @@ void brz_load(FILE *f, cmph_t *mphf)
{ {
char *buf = NULL; char *buf = NULL;
cmph_uint32 buflen; cmph_uint32 buflen;
register cmph_uint32 nbytes;
cmph_uint32 i, n; cmph_uint32 i, n;
brz_data_t *brz = (brz_data_t *)malloc(sizeof(brz_data_t)); brz_data_t *brz = (brz_data_t *)malloc(sizeof(brz_data_t));
DEBUGP("Loading brz mphf\n"); DEBUGP("Loading brz mphf\n");
mphf->data = brz; mphf->data = brz;
fread(&(brz->c), sizeof(double), (size_t)1, f); nbytes = fread(&(brz->c), sizeof(double), (size_t)1, f);
fread(&(brz->algo), sizeof(brz->algo), (size_t)1, f); // Reading algo. nbytes = fread(&(brz->algo), sizeof(brz->algo), (size_t)1, f); // Reading algo.
fread(&(brz->k), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(brz->k), sizeof(cmph_uint32), (size_t)1, f);
brz->size = (cmph_uint8 *) malloc(sizeof(cmph_uint8)*brz->k); brz->size = (cmph_uint8 *) malloc(sizeof(cmph_uint8)*brz->k);
fread(brz->size, sizeof(cmph_uint8)*(brz->k), (size_t)1, f); nbytes = fread(brz->size, sizeof(cmph_uint8)*(brz->k), (size_t)1, f);
brz->h1 = (hash_state_t **)malloc(sizeof(hash_state_t *)*brz->k); brz->h1 = (hash_state_t **)malloc(sizeof(hash_state_t *)*brz->k);
brz->h2 = (hash_state_t **)malloc(sizeof(hash_state_t *)*brz->k); brz->h2 = (hash_state_t **)malloc(sizeof(hash_state_t *)*brz->k);
brz->g = (cmph_uint8 **) calloc((size_t)brz->k, sizeof(cmph_uint8 *)); brz->g = (cmph_uint8 **) calloc((size_t)brz->k, sizeof(cmph_uint8 *));
@ -593,17 +596,17 @@ void brz_load(FILE *f, cmph_t *mphf)
for(i = 0; i < brz->k; i++) for(i = 0; i < brz->k; i++)
{ {
// h1 // h1
fread(&buflen, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&buflen, sizeof(cmph_uint32), (size_t)1, f);
DEBUGP("Hash state 1 has %u bytes\n", buflen); DEBUGP("Hash state 1 has %u bytes\n", buflen);
buf = (char *)malloc((size_t)buflen); buf = (char *)malloc((size_t)buflen);
fread(buf, (size_t)buflen, (size_t)1, f); nbytes = fread(buf, (size_t)buflen, (size_t)1, f);
brz->h1[i] = hash_state_load(buf, buflen); brz->h1[i] = hash_state_load(buf, buflen);
free(buf); free(buf);
//h2 //h2
fread(&buflen, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&buflen, sizeof(cmph_uint32), (size_t)1, f);
DEBUGP("Hash state 2 has %u bytes\n", buflen); DEBUGP("Hash state 2 has %u bytes\n", buflen);
buf = (char *)malloc((size_t)buflen); buf = (char *)malloc((size_t)buflen);
fread(buf, (size_t)buflen, (size_t)1, f); nbytes = fread(buf, (size_t)buflen, (size_t)1, f);
brz->h2[i] = hash_state_load(buf, buflen); brz->h2[i] = hash_state_load(buf, buflen);
free(buf); free(buf);
switch(brz->algo) switch(brz->algo)
@ -618,20 +621,20 @@ void brz_load(FILE *f, cmph_t *mphf)
} }
DEBUGP("g_i has %u bytes\n", n); DEBUGP("g_i has %u bytes\n", n);
brz->g[i] = (cmph_uint8 *)calloc((size_t)n, sizeof(cmph_uint8)); brz->g[i] = (cmph_uint8 *)calloc((size_t)n, sizeof(cmph_uint8));
fread(brz->g[i], sizeof(cmph_uint8)*n, (size_t)1, f); nbytes = fread(brz->g[i], sizeof(cmph_uint8)*n, (size_t)1, f);
} }
//loading h0 //loading h0
fread(&buflen, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&buflen, sizeof(cmph_uint32), (size_t)1, f);
DEBUGP("Hash state has %u bytes\n", buflen); DEBUGP("Hash state has %u bytes\n", buflen);
buf = (char *)malloc((size_t)buflen); buf = (char *)malloc((size_t)buflen);
fread(buf, (size_t)buflen, (size_t)1, f); nbytes = fread(buf, (size_t)buflen, (size_t)1, f);
brz->h0 = hash_state_load(buf, buflen); brz->h0 = hash_state_load(buf, buflen);
free(buf); free(buf);
//loading c, m, and the vector offset. //loading c, m, and the vector offset.
fread(&(brz->m), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(brz->m), sizeof(cmph_uint32), (size_t)1, f);
brz->offset = (cmph_uint32 *)malloc(sizeof(cmph_uint32)*brz->k); brz->offset = (cmph_uint32 *)malloc(sizeof(cmph_uint32)*brz->k);
fread(brz->offset, sizeof(cmph_uint32)*(brz->k), (size_t)1, f); nbytes = fread(brz->offset, sizeof(cmph_uint32)*(brz->k), (size_t)1, f);
return; return;
} }

32
src/chm.c
View File

@ -204,25 +204,27 @@ int chm_dump(cmph_t *mphf, FILE *fd)
cmph_uint32 buflen; cmph_uint32 buflen;
cmph_uint32 two = 2; //number of hash functions cmph_uint32 two = 2; //number of hash functions
chm_data_t *data = (chm_data_t *)mphf->data; chm_data_t *data = (chm_data_t *)mphf->data;
register cmph_uint32 nbytes;
__cmph_dump(mphf, fd); __cmph_dump(mphf, fd);
fwrite(&two, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&two, sizeof(cmph_uint32), (size_t)1, fd);
hash_state_dump(data->hashes[0], &buf, &buflen); hash_state_dump(data->hashes[0], &buf, &buflen);
DEBUGP("Dumping hash state with %u bytes to disk\n", buflen); DEBUGP("Dumping hash state with %u bytes to disk\n", buflen);
fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd);
fwrite(buf, (size_t)buflen, (size_t)1, fd); nbytes = fwrite(buf, (size_t)buflen, (size_t)1, fd);
free(buf); free(buf);
hash_state_dump(data->hashes[1], &buf, &buflen); hash_state_dump(data->hashes[1], &buf, &buflen);
DEBUGP("Dumping hash state with %u bytes to disk\n", buflen); DEBUGP("Dumping hash state with %u bytes to disk\n", buflen);
fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd);
fwrite(buf, (size_t)buflen, (size_t)1, fd); nbytes = fwrite(buf, (size_t)buflen, (size_t)1, fd);
free(buf); free(buf);
fwrite(&(data->n), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->n), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(data->g, sizeof(cmph_uint32)*data->n, (size_t)1, fd); nbytes = fwrite(data->g, sizeof(cmph_uint32)*data->n, (size_t)1, fd);
#ifdef DEBUG #ifdef DEBUG
fprintf(stderr, "G: "); fprintf(stderr, "G: ");
for (i = 0; i < data->n; ++i) fprintf(stderr, "%u ", data->g[i]); for (i = 0; i < data->n; ++i) fprintf(stderr, "%u ", data->g[i]);
@ -238,31 +240,31 @@ void chm_load(FILE *f, cmph_t *mphf)
cmph_uint32 buflen; cmph_uint32 buflen;
cmph_uint32 i; cmph_uint32 i;
chm_data_t *chm = (chm_data_t *)malloc(sizeof(chm_data_t)); chm_data_t *chm = (chm_data_t *)malloc(sizeof(chm_data_t));
register cmph_uint32 nbytes;
DEBUGP("Loading chm mphf\n"); DEBUGP("Loading chm mphf\n");
mphf->data = chm; mphf->data = chm;
fread(&nhashes, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&nhashes, sizeof(cmph_uint32), (size_t)1, f);
chm->hashes = (hash_state_t **)malloc(sizeof(hash_state_t *)*(nhashes + 1)); chm->hashes = (hash_state_t **)malloc(sizeof(hash_state_t *)*(nhashes + 1));
chm->hashes[nhashes] = NULL; chm->hashes[nhashes] = NULL;
DEBUGP("Reading %u hashes\n", nhashes); DEBUGP("Reading %u hashes\n", nhashes);
for (i = 0; i < nhashes; ++i) for (i = 0; i < nhashes; ++i)
{ {
hash_state_t *state = NULL; hash_state_t *state = NULL;
fread(&buflen, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&buflen, sizeof(cmph_uint32), (size_t)1, f);
DEBUGP("Hash state has %u bytes\n", buflen); DEBUGP("Hash state has %u bytes\n", buflen);
buf = (char *)malloc((size_t)buflen); buf = (char *)malloc((size_t)buflen);
fread(buf, (size_t)buflen, (size_t)1, f); nbytes = fread(buf, (size_t)buflen, (size_t)1, f);
state = hash_state_load(buf, buflen); state = hash_state_load(buf, buflen);
chm->hashes[i] = state; chm->hashes[i] = state;
free(buf); free(buf);
} }
DEBUGP("Reading m and n\n"); DEBUGP("Reading m and n\n");
fread(&(chm->n), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(chm->n), sizeof(cmph_uint32), (size_t)1, f);
fread(&(chm->m), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(chm->m), sizeof(cmph_uint32), (size_t)1, f);
chm->g = (cmph_uint32 *)malloc(sizeof(cmph_uint32)*chm->n); chm->g = (cmph_uint32 *)malloc(sizeof(cmph_uint32)*chm->n);
fread(chm->g, chm->n*sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(chm->g, chm->n*sizeof(cmph_uint32), (size_t)1, f);
#ifdef DEBUG #ifdef DEBUG
fprintf(stderr, "G: "); fprintf(stderr, "G: ");
for (i = 0; i < chm->n; ++i) fprintf(stderr, "%u ", chm->g[i]); for (i = 0; i < chm->n; ++i) fprintf(stderr, "%u ", chm->g[i]);

3
src/cmph.c
View File

@ -150,11 +150,12 @@ static void key_vector_rewind(void *data)
static cmph_uint32 count_nlfile_keys(FILE *fd) static cmph_uint32 count_nlfile_keys(FILE *fd)
{ {
cmph_uint32 count = 0; cmph_uint32 count = 0;
register char * ptr;
rewind(fd); rewind(fd);
while(1) while(1)
{ {
char buf[BUFSIZ]; char buf[BUFSIZ];
fgets(buf, BUFSIZ, fd); ptr = fgets(buf, BUFSIZ, fd);
if (feof(fd)) break; if (feof(fd)) break;
if (buf[strlen(buf) - 1] != '\n') continue; if (buf[strlen(buf) - 1] != '\n') continue;
++count; ++count;

10
src/cmph_structs.c
View File

@ -24,8 +24,9 @@ void __config_destroy(cmph_config_t *mph)
void __cmph_dump(cmph_t *mphf, FILE *fd) void __cmph_dump(cmph_t *mphf, FILE *fd)
{ {
fwrite(cmph_names[mphf->algo], (size_t)(strlen(cmph_names[mphf->algo]) + 1), (size_t)1, fd); register cmph_uint32 nbytes;
fwrite(&(mphf->size), sizeof(mphf->size), (size_t)1, fd); nbytes = fwrite(cmph_names[mphf->algo], (size_t)(strlen(cmph_names[mphf->algo]) + 1), (size_t)1, fd);
nbytes = fwrite(&(mphf->size), sizeof(mphf->size), (size_t)1, fd);
} }
cmph_t *__cmph_load(FILE *f) cmph_t *__cmph_load(FILE *f)
{ {
@ -34,7 +35,8 @@ cmph_t *__cmph_load(FILE *f)
char algo_name[BUFSIZ]; char algo_name[BUFSIZ];
char *ptr = algo_name; char *ptr = algo_name;
CMPH_ALGO algo = CMPH_COUNT; CMPH_ALGO algo = CMPH_COUNT;
register cmph_uint32 nbytes;
DEBUGP("Loading mphf\n"); DEBUGP("Loading mphf\n");
while(1) while(1)
{ {
@ -57,7 +59,7 @@ cmph_t *__cmph_load(FILE *f)
} }
mphf = (cmph_t *)malloc(sizeof(cmph_t)); mphf = (cmph_t *)malloc(sizeof(cmph_t));
mphf->algo = algo; mphf->algo = algo;
fread(&(mphf->size), sizeof(mphf->size), (size_t)1, f); nbytes = fread(&(mphf->size), sizeof(mphf->size), (size_t)1, f);
mphf->data = NULL; mphf->data = NULL;
DEBUGP("Algorithm is %s and mphf is sized %u\n", cmph_names[algo], mphf->size); DEBUGP("Algorithm is %s and mphf is sized %u\n", cmph_names[algo], mphf->size);

5
src/cmph_types.h
View File

@ -1,8 +1,13 @@
#ifndef __CMPH_TYPES_H__ #ifndef __CMPH_TYPES_H__
#define __CMPH_TYPES_H__ #define __CMPH_TYPES_H__
typedef char cmph_int8;
typedef unsigned char cmph_uint8; typedef unsigned char cmph_uint8;
typedef short cmph_int16;
typedef unsigned short cmph_uint16; typedef unsigned short cmph_uint16;
typedef int cmph_int32;
typedef unsigned int cmph_uint32; typedef unsigned int cmph_uint32;
#if defined(__ia64) || defined(__x86_64__) #if defined(__ia64) || defined(__x86_64__)

43
src/fch.c
View File

@ -316,27 +316,29 @@ int fch_dump(cmph_t *mphf, FILE *fd)
{ {
char *buf = NULL; char *buf = NULL;
cmph_uint32 buflen; cmph_uint32 buflen;
register cmph_uint32 nbytes;
fch_data_t *data = (fch_data_t *)mphf->data; fch_data_t *data = (fch_data_t *)mphf->data;
__cmph_dump(mphf, fd); __cmph_dump(mphf, fd);
hash_state_dump(data->h1, &buf, &buflen); hash_state_dump(data->h1, &buf, &buflen);
//DEBUGP("Dumping hash state with %u bytes to disk\n", buflen); //DEBUGP("Dumping hash state with %u bytes to disk\n", buflen);
fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd);
fwrite(buf, (size_t)buflen, (size_t)1, fd); nbytes = fwrite(buf, (size_t)buflen, (size_t)1, fd);
free(buf); free(buf);
hash_state_dump(data->h2, &buf, &buflen); hash_state_dump(data->h2, &buf, &buflen);
//DEBUGP("Dumping hash state with %u bytes to disk\n", buflen); //DEBUGP("Dumping hash state with %u bytes to disk\n", buflen);
fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&buflen, sizeof(cmph_uint32), (size_t)1, fd);
fwrite(buf, (size_t)buflen, (size_t)1, fd); nbytes = fwrite(buf, (size_t)buflen, (size_t)1, fd);
free(buf); free(buf);
fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->m), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(&(data->c), sizeof(double), (size_t)1, fd); nbytes = fwrite(&(data->c), sizeof(double), (size_t)1, fd);
fwrite(&(data->b), sizeof(cmph_uint32), (size_t)1, fd); nbytes = fwrite(&(data->b), sizeof(cmph_uint32), (size_t)1, fd);
fwrite(&(data->p1), sizeof(double), (size_t)1, fd); nbytes = fwrite(&(data->p1), sizeof(double), (size_t)1, fd);
fwrite(&(data->p2), sizeof(double), (size_t)1, fd); nbytes = fwrite(&(data->p2), sizeof(double), (size_t)1, fd);
fwrite(data->g, sizeof(cmph_uint32)*(data->b), (size_t)1, fd); nbytes = fwrite(data->g, sizeof(cmph_uint32)*(data->b), (size_t)1, fd);
#ifdef DEBUG #ifdef DEBUG
cmph_uint32 i; cmph_uint32 i;
fprintf(stderr, "G: "); fprintf(stderr, "G: ");
@ -350,16 +352,17 @@ void fch_load(FILE *f, cmph_t *mphf)
{ {
char *buf = NULL; char *buf = NULL;
cmph_uint32 buflen; cmph_uint32 buflen;
register cmph_uint32 nbytes;
fch_data_t *fch = (fch_data_t *)malloc(sizeof(fch_data_t)); fch_data_t *fch = (fch_data_t *)malloc(sizeof(fch_data_t));
//DEBUGP("Loading fch mphf\n"); //DEBUGP("Loading fch mphf\n");
mphf->data = fch; mphf->data = fch;
//DEBUGP("Reading h1\n"); //DEBUGP("Reading h1\n");
fch->h1 = NULL; fch->h1 = NULL;
fread(&buflen, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&buflen, sizeof(cmph_uint32), (size_t)1, f);
//DEBUGP("Hash state of h1 has %u bytes\n", buflen); //DEBUGP("Hash state of h1 has %u bytes\n", buflen);
buf = (char *)malloc((size_t)buflen); buf = (char *)malloc((size_t)buflen);
fread(buf, (size_t)buflen, (size_t)1, f); nbytes = fread(buf, (size_t)buflen, (size_t)1, f);
fch->h1 = hash_state_load(buf, buflen); fch->h1 = hash_state_load(buf, buflen);
free(buf); free(buf);
@ -367,23 +370,23 @@ void fch_load(FILE *f, cmph_t *mphf)
mphf->data = fch; mphf->data = fch;
//DEBUGP("Reading h2\n"); //DEBUGP("Reading h2\n");
fch->h2 = NULL; fch->h2 = NULL;
fread(&buflen, sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&buflen, sizeof(cmph_uint32), (size_t)1, f);
//DEBUGP("Hash state of h2 has %u bytes\n", buflen); //DEBUGP("Hash state of h2 has %u bytes\n", buflen);
buf = (char *)malloc((size_t)buflen); buf = (char *)malloc((size_t)buflen);
fread(buf, (size_t)buflen, (size_t)1, f); nbytes = fread(buf, (size_t)buflen, (size_t)1, f);
fch->h2 = hash_state_load(buf, buflen); fch->h2 = hash_state_load(buf, buflen);
free(buf); free(buf);
//DEBUGP("Reading m and n\n"); //DEBUGP("Reading m and n\n");
fread(&(fch->m), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(fch->m), sizeof(cmph_uint32), (size_t)1, f);
fread(&(fch->c), sizeof(double), (size_t)1, f); nbytes = fread(&(fch->c), sizeof(double), (size_t)1, f);
fread(&(fch->b), sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(&(fch->b), sizeof(cmph_uint32), (size_t)1, f);
fread(&(fch->p1), sizeof(double), (size_t)1, f); nbytes = fread(&(fch->p1), sizeof(double), (size_t)1, f);
fread(&(fch->p2), sizeof(double), (size_t)1, f); nbytes = fread(&(fch->p2), sizeof(double), (size_t)1, f);
fch->g = (cmph_uint32 *)malloc(sizeof(cmph_uint32)*fch->b); fch->g = (cmph_uint32 *)malloc(sizeof(cmph_uint32)*fch->b);
fread(fch->g, fch->b*sizeof(cmph_uint32), (size_t)1, f); nbytes = fread(fch->g, fch->b*sizeof(cmph_uint32), (size_t)1, f);
#ifdef DEBUG #ifdef DEBUG
cmph_uint32 i; cmph_uint32 i;
fprintf(stderr, "G: "); fprintf(stderr, "G: ");

2
src/graph.c
View File

@ -199,7 +199,7 @@ static int find_degree1_edge(graph_t *g, cmph_uint32 v, char *deleted, cmph_uint
static void cyclic_del_edge(graph_t *g, cmph_uint32 v, char *deleted) static void cyclic_del_edge(graph_t *g, cmph_uint32 v, char *deleted)
{ {
cmph_uint32 e; cmph_uint32 e = 0;
char degree1; char degree1;
cmph_uint32 v1 = v; cmph_uint32 v1 = v;
cmph_uint32 v2 = 0; cmph_uint32 v2 = 0;

2
src/jenkins_hash.h
View File

@ -39,7 +39,7 @@ void jenkins_state_destroy(jenkins_state_t *state);
*/ */
void jenkins_state_pack(jenkins_state_t *state, void *jenkins_packed); void jenkins_state_pack(jenkins_state_t *state, void *jenkins_packed);
/** \fn cmph_uint32 jenkins_state_packed_size(jenkins_state_t *state); /** \fn cmph_uint32 jenkins_state_packed_size();
* \brief Return the amount of space needed to pack a jenkins function. * \brief Return the amount of space needed to pack a jenkins function.
* \return the size of the packed function or zero for failures * \return the size of the packed function or zero for failures
*/ */

327
src/select.c Normal file
View File

@ -0,0 +1,327 @@
#include<stdlib.h>
#include<stdio.h>
#include <assert.h>
#include <string.h>
#include <limits.h>
#include "select_lookup_tables.h"
#include "select.h"
//#define DEBUG
#include "debug.h"
#ifndef STEP_SELECT_TABLE
#define STEP_SELECT_TABLE 128
#endif
#ifndef NBITS_STEP_SELECT_TABLE
#define NBITS_STEP_SELECT_TABLE 7
#endif
#ifndef MASK_STEP_SELECT_TABLE
#define MASK_STEP_SELECT_TABLE 0x7f // 0x7f = 127
#endif
static inline void select_insert_0(cmph_uint32 * buffer)
{
(*buffer) >>= 1;
};
static inline void select_insert_1(cmph_uint32 * buffer)
{
(*buffer) >>= 1;
(*buffer) |= 0x80000000;
};
void select_init(select_t * sel, cmph_uint32 n, cmph_uint32 m)
{
register cmph_uint32 nbits;
register cmph_uint32 vec_size;
register cmph_uint32 sel_table_size;
sel->n = n;
sel->m = m; // n values in the range [0,m-1]
nbits = sel->n + sel->m;
vec_size = (nbits + 31) >> 5; // (nbits + 31) >> 5 = (nbits + 31)/32
sel_table_size = (sel->n >> NBITS_STEP_SELECT_TABLE) + 1; // (sel->n >> NBITS_STEP_SELECT_TABLE) = (sel->n/STEP_SELECT_TABLE)
sel->bits_vec = (cmph_uint32 *)calloc(vec_size, sizeof(cmph_uint32));
sel->select_table = (cmph_uint32 *)calloc(sel_table_size, sizeof(cmph_uint32));
};
double select_get_space_usage(select_t * sel)
{
register cmph_uint32 nbits;
register cmph_uint32 vec_size;
register cmph_uint32 sel_table_size;
register double space_usage;
nbits = sel->n + sel->m;
vec_size = (nbits + 31) >> 5; // (nbits + 31) >> 5 = (nbits + 31)/32
sel_table_size = (sel->n >> NBITS_STEP_SELECT_TABLE) + 1; // (sel->n >> NBITS_STEP_SELECT_TABLE) = (sel->n/STEP_SELECT_TABLE)
space_usage = 2 * sizeof(cmph_uint32) * 8; // n and m
space_usage += vec_size * sizeof(cmph_uint32) * 8;
space_usage += sel_table_size * sizeof(cmph_uint32) * 8;
return space_usage;
}
void select_destroy(select_t * sel)
{
free(sel->bits_vec);
free(sel->select_table);
sel->bits_vec = 0;
sel->select_table = 0;
};
static inline void select_generate_sel_table(select_t * sel)
{
register cmph_uint8 * bits_table = (cmph_uint8 *)sel->bits_vec;
register cmph_uint32 part_sum, old_part_sum;
register cmph_uint32 vec_idx, one_idx, sel_table_idx;
part_sum = vec_idx = one_idx = sel_table_idx = 0;
for(;;)
{
// FABIANO: Should'n it be one_idx >= sel->n
if(one_idx >= sel->n)
break;
do
{
old_part_sum = part_sum;
part_sum += rank_lookup_table[bits_table[vec_idx]];
vec_idx++;
} while (part_sum <= one_idx);
sel->select_table[sel_table_idx] = select_lookup_table[bits_table[vec_idx - 1]][one_idx - old_part_sum] + ((vec_idx - 1) << 3); // ((vec_idx - 1) << 3) = ((vec_idx - 1) * 8)
one_idx += STEP_SELECT_TABLE ;
sel_table_idx++;
};
};
void select_generate(select_t * sel, cmph_uint32 * keys_vec)
{
register cmph_uint32 i, j, idx;
cmph_uint32 buffer = 0;
idx = i = j = 0;
for(;;)
{
while(keys_vec[j]==i)
{
select_insert_1(&buffer);
idx++;
if((idx & 0x1f) == 0 ) // (idx & 0x1f) = idx % 32
sel->bits_vec[(idx >> 5) - 1] = buffer; // (idx >> 5) = idx/32
j++;
if(j == sel->n)
goto loop_end;
//assert(keys_vec[j] < keys_vec[j-1]);
}
if(i == sel->m)
break;
while(keys_vec[j] > i)
{
select_insert_0(&buffer);
idx++;
if((idx & 0x1f) == 0 ) // (idx & 0x1f) = idx % 32
sel->bits_vec[(idx >> 5) - 1] = buffer; // (idx >> 5) = idx/32
i++;
};
};
loop_end:
if((idx & 0x1f) != 0 ) // (idx & 0x1f) = idx % 32
{
buffer >>= 32 - (idx & 0x1f);
sel->bits_vec[ (idx - 1) >> 5 ] = buffer;
};
select_generate_sel_table(sel);
};
static inline cmph_int32 _select_query(cmph_uint8 * bits_table, cmph_uint32 * select_table, cmph_uint32 one_idx)
{
register cmph_uint32 vec_bit_idx ,vec_byte_idx;
register cmph_uint32 part_sum, old_part_sum;
vec_bit_idx = select_table[one_idx >> NBITS_STEP_SELECT_TABLE]; // one_idx >> NBITS_STEP_SELECT_TABLE = one_idx/STEP_SELECT_TABLE
vec_byte_idx = vec_bit_idx >> 3; // vec_bit_idx / 8
one_idx &= MASK_STEP_SELECT_TABLE; // one_idx %= STEP_SELECT_TABLE == one_idx &= MASK_STEP_SELECT_TABLE
one_idx += rank_lookup_table[bits_table[vec_byte_idx] & ((1 << (vec_bit_idx & 0x7)) - 1)];
part_sum = 0;
do
{
old_part_sum = part_sum;
part_sum += rank_lookup_table[bits_table[vec_byte_idx]];
vec_byte_idx++;
}while (part_sum <= one_idx);
return select_lookup_table[bits_table[vec_byte_idx - 1]][one_idx - old_part_sum] + ((vec_byte_idx-1) << 3);
}
cmph_int32 select_query(select_t * sel, cmph_uint32 one_idx)
{
return _select_query((cmph_uint8 *)sel->bits_vec, sel->select_table, one_idx);
};
static inline cmph_int32 _select_next_query(cmph_uint8 * bits_table, cmph_uint32 vec_bit_idx)
{
register cmph_uint32 vec_byte_idx, one_idx;
register cmph_uint32 part_sum, old_part_sum;
vec_byte_idx = vec_bit_idx >> 3;
one_idx = rank_lookup_table[bits_table[vec_byte_idx] & ((1 << (vec_bit_idx & 0x7)) - 1)] + 1;
part_sum = 0;
do
{
old_part_sum = part_sum;
part_sum += rank_lookup_table[bits_table[vec_byte_idx]];
vec_byte_idx++;
}while (part_sum <= one_idx);
return select_lookup_table[bits_table[(vec_byte_idx - 1)]][(one_idx - old_part_sum)] + ((vec_byte_idx - 1) << 3);
}
cmph_int32 select_next_query(select_t * sel, cmph_uint32 vec_bit_idx)
{
return _select_next_query((cmph_uint8 *)sel->bits_vec, vec_bit_idx);
};
void select_dump(select_t *sel, char **buf, cmph_uint32 *buflen)
{
register cmph_uint32 nbits = sel->n + sel->m;
register cmph_uint32 vec_size = (nbits + 31) >> 5; // (nbits + 31) >> 5 = (nbits + 31)/32
register cmph_uint32 sel_table_size = (sel->n >> NBITS_STEP_SELECT_TABLE) + 1; // (sel->n >> NBITS_STEP_SELECT_TABLE) = (sel->n/STEP_SELECT_TABLE)
register cmph_uint32 pos = 0;
*buflen = 2*sizeof(cmph_uint32) + vec_size + sel_table_size;
*buf = (char *)calloc(*buflen, sizeof(char));
if (!*buf)
{
*buflen = UINT_MAX;
return;
}
memcpy(*buf, &(sel->n), sizeof(cmph_uint32));
pos += sizeof(cmph_uint32);
memcpy(*buf + pos, &(sel->m), sizeof(cmph_uint32));
pos += sizeof(cmph_uint32);
memcpy(*buf + pos, sel->bits_vec, vec_size);
pos += vec_size;
memcpy(*buf + pos, sel->select_table, sel_table_size);
DEBUGP("Dumped select structure with size %u bytes\n", *buflen);
}
void select_load(select_t * sel, const char *buf, cmph_uint32 buflen)
{
register cmph_uint32 pos = 0;
register cmph_uint32 nbits = 0;
register cmph_uint32 vec_size = 0;
register cmph_uint32 sel_table_size = 0;
memcpy(&(sel->n), buf, sizeof(cmph_uint32));
pos += sizeof(cmph_uint32);
memcpy(&(sel->m), buf + pos, sizeof(cmph_uint32));
pos += sizeof(cmph_uint32);
nbits = sel->n + sel->m;
vec_size = (nbits + 31) >> 5; // (nbits + 31) >> 5 = (nbits + 31)/32
sel_table_size = (sel->n >> NBITS_STEP_SELECT_TABLE) + 1; // (sel->n >> NBITS_STEP_SELECT_TABLE) = (sel->n/STEP_SELECT_TABLE)
if(sel->bits_vec) free(sel->bits_vec);
sel->bits_vec = (cmph_uint32 *)calloc(vec_size, sizeof(cmph_uint32));
if(sel->select_table) free(sel->select_table);
sel->select_table = (cmph_uint32 *)calloc(sel_table_size, sizeof(cmph_uint32));
memcpy(sel->bits_vec, buf + pos, vec_size);
pos += vec_size;
memcpy(sel->select_table, buf + pos, sel_table_size);
DEBUGP("Loaded select structure with size %u bytes\n", buflen);
}
/** \fn void select_pack(select_t *sel, void *sel_packed);
* \brief Support the ability to pack a select structure function into a preallocated contiguous memory space pointed by sel_packed.
* \param sel points to the select structure
* \param sel_packed pointer to the contiguous memory area used to store the select structure. The size of sel_packed must be at least @see select_packed_size
*/
void select_pack(select_t *sel, void *sel_packed)
{
if (sel && sel_packed)
{
char *buf = NULL;
cmph_uint32 buflen = 0;
select_dump(sel, &buf, &buflen);
memcpy(sel_packed, buf, buflen);
free(buf);
}
}
/** \fn cmph_uint32 select_packed_size(select_t *sel);
* \brief Return the amount of space needed to pack a select structure.
* \return the size of the packed select structure or zero for failures
*/
cmph_uint32 select_packed_size(select_t *sel)
{
register cmph_uint32 nbits = sel->n + sel->m;
register cmph_uint32 vec_size = (nbits + 31) >> 5; // (nbits + 31) >> 5 = (nbits + 31)/32
register cmph_uint32 sel_table_size = (sel->n >> NBITS_STEP_SELECT_TABLE) + 1; // (sel->n >> NBITS_STEP_SELECT_TABLE) = (sel->n/STEP_SELECT_TABLE)
return 2*sizeof(cmph_uint32) + vec_size + sel_table_size;
}
/** \fn cmph_int32 select_query_packed(void * sel_packed, cmph_uint32 idx);
* \param sel_packed is a pointer to a contiguous memory area
* \param idx is the rank for which we want to calculate the inverse function select
* \return an integer that represents the select value of rank idx.
*/
cmph_int32 select_query_packed(void * sel_packed, cmph_uint32 one_idx)
{
register cmph_uint32 *ptr = (cmph_uint32 *)sel_packed;
register cmph_uint32 n = *ptr++;
register cmph_uint32 m = *ptr++;
register cmph_uint32 nbits = n + m;
register cmph_uint32 vec_size = (nbits + 31) >> 5; // (nbits + 31) >> 5 = (nbits + 31)/32
register cmph_uint8 * bits_vec = (cmph_uint8 *)ptr;
register cmph_uint32 * select_table = ptr + vec_size;
return _select_query(bits_vec, select_table, one_idx);
}
/** \fn cmph_int32 select_next_query_packed(void * sel_packed, cmph_uint32 vec_bit_idx);
* \param sel_packed is a pointer to a contiguous memory area
* \param vec_bit_idx is a value prior computed by @see select_query_packed
* \return an integer that represents the next select value greater than @see vec_bit_idx.
*/
cmph_int32 select_next_query_packed(void * sel_packed, cmph_uint32 vec_bit_idx)
{
register cmph_uint8 * bits_vec = (cmph_uint8 *)sel_packed;
bits_vec += 8; // skipping n and m
return _select_next_query(bits_vec, vec_bit_idx);
}

61
src/select.h Normal file
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@ -0,0 +1,61 @@
#ifndef SELECT_h
#define SELECT_h
#include "cmph_types.h"
struct _select_t
{
cmph_uint32 n,m;
cmph_uint32 * bits_vec;
cmph_uint32 * select_table;
};
typedef struct _select_t select_t;
void select_init(select_t * sel, cmph_uint32 n, cmph_uint32 m);
void select_destroy(select_t * sel);
void select_generate(select_t * sel, cmph_uint32 * keys_vec);
cmph_int32 select_query(select_t * sel, cmph_uint32 one_idx);
cmph_int32 select_next_query(select_t * sel, cmph_uint32 vec_bit_idx);
double select_get_space_usage(select_t * sel);
void select_dump(select_t *sel, char **buf, cmph_uint32 *buflen);
void select_load(select_t * sel, const char *buf, cmph_uint32 buflen);
/** \fn void select_pack(select_t *sel, void *sel_packed);
* \brief Support the ability to pack a select structure function into a preallocated contiguous memory space pointed by sel_packed.
* \param sel points to the select structure
* \param sel_packed pointer to the contiguous memory area used to store the select structure. The size of sel_packed must be at least @see select_packed_size
*/
void select_pack(select_t *sel, void *sel_packed);
/** \fn cmph_uint32 select_packed_size(select_t *sel);
* \brief Return the amount of space needed to pack a select structure.
* \return the size of the packed select structure or zero for failures
*/
cmph_uint32 select_packed_size(select_t *sel);
/** \fn cmph_int32 select_query_packed(void * sel_packed, cmph_uint32 idx);
* \param sel_packed is a pointer to a contiguous memory area
* \param one_idx is the rank for which we want to calculate the inverse function select
* \return an integer that represents the select value of rank idx.
*/
cmph_int32 select_query_packed(void * sel_packed, cmph_uint32 one_idx);
/** \fn cmph_int32 select_next_query_packed(void * sel_packed, cmph_uint32 vec_bit_idx);
* \param sel_packed is a pointer to a contiguous memory area
* \param vec_bit_idx is a value prior computed by @see select_query_packed
* \return an integer that represents the next select value greater than @see vec_bit_idx.
*/
cmph_int32 select_next_query_packed(void * sel_packed, cmph_uint32 vec_bit_idx);
#endif

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src/select_lookup_tables.h Normal file
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@ -0,0 +1,170 @@
#ifndef SELECT_LOOKUP_TABLES
#define SELECT_LOOKUP_TABLES
#include "cmph_types.h"
/*
rank_lookup_table[i] simply gives the number of bits set to one in the byte of value i.
For example if i = 01010101 in binary then we have :
rank_lookup_table[i] = 4
*/
static cmph_uint8 rank_lookup_table[256] ={
0 , 1 , 1 , 2 , 1 , 2 , 2 , 3 , 1 , 2 , 2 , 3 , 2 , 3 , 3 , 4
, 1 , 2 , 2 , 3 , 2 , 3 , 3 , 4 , 2 , 3 , 3 , 4 , 3 , 4 , 4 , 5
, 1 , 2 , 2 , 3 , 2 , 3 , 3 , 4 , 2 , 3 , 3 , 4 , 3 , 4 , 4 , 5
, 2 , 3 , 3 , 4 , 3 , 4 , 4 , 5 , 3 , 4 , 4 , 5 , 4 , 5 , 5 , 6
, 1 , 2 , 2 , 3 , 2 , 3 , 3 , 4 , 2 , 3 , 3 , 4 , 3 , 4 , 4 , 5
, 2 , 3 , 3 , 4 , 3 , 4 , 4 , 5 , 3 , 4 , 4 , 5 , 4 , 5 , 5 , 6
, 2 , 3 , 3 , 4 , 3 , 4 , 4 , 5 , 3 , 4 , 4 , 5 , 4 , 5 , 5 , 6
, 3 , 4 , 4 , 5 , 4 , 5 , 5 , 6 , 4 , 5 , 5 , 6 , 5 , 6 , 6 , 7
, 1 , 2 , 2 , 3 , 2 , 3 , 3 , 4 , 2 , 3 , 3 , 4 , 3 , 4 , 4 , 5
, 2 , 3 , 3 , 4 , 3 , 4 , 4 , 5 , 3 , 4 , 4 , 5 , 4 , 5 , 5 , 6
, 2 , 3 , 3 , 4 , 3 , 4 , 4 , 5 , 3 , 4 , 4 , 5 , 4 , 5 , 5 , 6
, 3 , 4 , 4 , 5 , 4 , 5 , 5 , 6 , 4 , 5 , 5 , 6 , 5 , 6 , 6 , 7
, 2 , 3 , 3 , 4 , 3 , 4 , 4 , 5 , 3 , 4 , 4 , 5 , 4 , 5 , 5 , 6
, 3 , 4 , 4 , 5 , 4 , 5 , 5 , 6 , 4 , 5 , 5 , 6 , 5 , 6 , 6 , 7
, 3 , 4 , 4 , 5 , 4 , 5 , 5 , 6 , 4 , 5 , 5 , 6 , 5 , 6 , 6 , 7
, 4 , 5 , 5 , 6 , 5 , 6 , 6 , 7 , 5 , 6 , 6 , 7 , 6 , 7 , 7 , 8
};
/*
select_lookup_table[i][j] simply gives the index of the j'th bit set to one in the byte of value i.
For example if i=01010101 in binary then we have :
select_lookup_table[i][0] = 0, the first bit set to one is at position 0
select_lookup_table[i][1] = 2, the second bit set to one is at position 2
select_lookup_table[i][2] = 4, the third bit set to one is at position 4
select_lookup_table[i][3] = 6, the fourth bit set to one is at position 6
select_lookup_table[i][4] = 255, there is no more than 4 bits set to one in i, so we return escape value 255.
*/
static cmph_uint8 select_lookup_table[256][8]={
{ 255 , 255 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 255 , 255 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 255 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 255 , 255 , 255 , 255 , 255 , 255 } ,
{ 2 , 255 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 255 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 255 , 255 , 255 , 255 , 255 } ,
{ 3 , 255 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 3 , 255 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 3 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 3 , 255 , 255 , 255 , 255 , 255 } ,
{ 2 , 3 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 3 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 3 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 3 , 255 , 255 , 255 , 255 } ,
{ 4 , 255 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 4 , 255 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 4 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 4 , 255 , 255 , 255 , 255 , 255 } ,
{ 2 , 4 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 4 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 4 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 4 , 255 , 255 , 255 , 255 } ,
{ 3 , 4 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 3 , 4 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 3 , 4 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 3 , 4 , 255 , 255 , 255 , 255 } ,
{ 2 , 3 , 4 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 3 , 4 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 3 , 4 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 3 , 4 , 255 , 255 , 255 } ,
{ 5 , 255 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 5 , 255 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 5 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 5 , 255 , 255 , 255 , 255 , 255 } ,
{ 2 , 5 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 5 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 5 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 5 , 255 , 255 , 255 , 255 } ,
{ 3 , 5 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 3 , 5 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 3 , 5 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 3 , 5 , 255 , 255 , 255 , 255 } ,
{ 2 , 3 , 5 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 3 , 5 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 3 , 5 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 3 , 5 , 255 , 255 , 255 } ,
{ 4 , 5 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 4 , 5 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 4 , 5 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 4 , 5 , 255 , 255 , 255 , 255 } ,
{ 2 , 4 , 5 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 4 , 5 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 4 , 5 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 4 , 5 , 255 , 255 , 255 } ,
{ 3 , 4 , 5 , 255 , 255 , 255 , 255 , 255 } , { 0 , 3 , 4 , 5 , 255 , 255 , 255 , 255 } ,
{ 1 , 3 , 4 , 5 , 255 , 255 , 255 , 255 } , { 0 , 1 , 3 , 4 , 5 , 255 , 255 , 255 } ,
{ 2 , 3 , 4 , 5 , 255 , 255 , 255 , 255 } , { 0 , 2 , 3 , 4 , 5 , 255 , 255 , 255 } ,
{ 1 , 2 , 3 , 4 , 5 , 255 , 255 , 255 } , { 0 , 1 , 2 , 3 , 4 , 5 , 255 , 255 } ,
{ 6 , 255 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 6 , 255 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 6 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 6 , 255 , 255 , 255 , 255 , 255 } ,
{ 2 , 6 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 6 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 6 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 6 , 255 , 255 , 255 , 255 } ,
{ 3 , 6 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 3 , 6 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 3 , 6 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 3 , 6 , 255 , 255 , 255 , 255 } ,
{ 2 , 3 , 6 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 3 , 6 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 3 , 6 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 3 , 6 , 255 , 255 , 255 } ,
{ 4 , 6 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 4 , 6 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 4 , 6 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 4 , 6 , 255 , 255 , 255 , 255 } ,
{ 2 , 4 , 6 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 4 , 6 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 4 , 6 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 4 , 6 , 255 , 255 , 255 } ,
{ 3 , 4 , 6 , 255 , 255 , 255 , 255 , 255 } , { 0 , 3 , 4 , 6 , 255 , 255 , 255 , 255 } ,
{ 1 , 3 , 4 , 6 , 255 , 255 , 255 , 255 } , { 0 , 1 , 3 , 4 , 6 , 255 , 255 , 255 } ,
{ 2 , 3 , 4 , 6 , 255 , 255 , 255 , 255 } , { 0 , 2 , 3 , 4 , 6 , 255 , 255 , 255 } ,
{ 1 , 2 , 3 , 4 , 6 , 255 , 255 , 255 } , { 0 , 1 , 2 , 3 , 4 , 6 , 255 , 255 } ,
{ 5 , 6 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 5 , 6 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 5 , 6 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 5 , 6 , 255 , 255 , 255 , 255 } ,
{ 2 , 5 , 6 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 5 , 6 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 5 , 6 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 5 , 6 , 255 , 255 , 255 } ,
{ 3 , 5 , 6 , 255 , 255 , 255 , 255 , 255 } , { 0 , 3 , 5 , 6 , 255 , 255 , 255 , 255 } ,
{ 1 , 3 , 5 , 6 , 255 , 255 , 255 , 255 } , { 0 , 1 , 3 , 5 , 6 , 255 , 255 , 255 } ,
{ 2 , 3 , 5 , 6 , 255 , 255 , 255 , 255 } , { 0 , 2 , 3 , 5 , 6 , 255 , 255 , 255 } ,
{ 1 , 2 , 3 , 5 , 6 , 255 , 255 , 255 } , { 0 , 1 , 2 , 3 , 5 , 6 , 255 , 255 } ,
{ 4 , 5 , 6 , 255 , 255 , 255 , 255 , 255 } , { 0 , 4 , 5 , 6 , 255 , 255 , 255 , 255 } ,
{ 1 , 4 , 5 , 6 , 255 , 255 , 255 , 255 } , { 0 , 1 , 4 , 5 , 6 , 255 , 255 , 255 } ,
{ 2 , 4 , 5 , 6 , 255 , 255 , 255 , 255 } , { 0 , 2 , 4 , 5 , 6 , 255 , 255 , 255 } ,
{ 1 , 2 , 4 , 5 , 6 , 255 , 255 , 255 } , { 0 , 1 , 2 , 4 , 5 , 6 , 255 , 255 } ,
{ 3 , 4 , 5 , 6 , 255 , 255 , 255 , 255 } , { 0 , 3 , 4 , 5 , 6 , 255 , 255 , 255 } ,
{ 1 , 3 , 4 , 5 , 6 , 255 , 255 , 255 } , { 0 , 1 , 3 , 4 , 5 , 6 , 255 , 255 } ,
{ 2 , 3 , 4 , 5 , 6 , 255 , 255 , 255 } , { 0 , 2 , 3 , 4 , 5 , 6 , 255 , 255 } ,
{ 1 , 2 , 3 , 4 , 5 , 6 , 255 , 255 } , { 0 , 1 , 2 , 3 , 4 , 5 , 6 , 255 } ,
{ 7 , 255 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 7 , 255 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 7 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 7 , 255 , 255 , 255 , 255 , 255 } ,
{ 2 , 7 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 7 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 7 , 255 , 255 , 255 , 255 } ,
{ 3 , 7 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 3 , 7 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 3 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 3 , 7 , 255 , 255 , 255 , 255 } ,
{ 2 , 3 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 3 , 7 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 3 , 7 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 3 , 7 , 255 , 255 , 255 } ,
{ 4 , 7 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 4 , 7 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 4 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 4 , 7 , 255 , 255 , 255 , 255 } ,
{ 2 , 4 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 4 , 7 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 4 , 7 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 4 , 7 , 255 , 255 , 255 } ,
{ 3 , 4 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 3 , 4 , 7 , 255 , 255 , 255 , 255 } ,
{ 1 , 3 , 4 , 7 , 255 , 255 , 255 , 255 } , { 0 , 1 , 3 , 4 , 7 , 255 , 255 , 255 } ,
{ 2 , 3 , 4 , 7 , 255 , 255 , 255 , 255 } , { 0 , 2 , 3 , 4 , 7 , 255 , 255 , 255 } ,
{ 1 , 2 , 3 , 4 , 7 , 255 , 255 , 255 } , { 0 , 1 , 2 , 3 , 4 , 7 , 255 , 255 } ,
{ 5 , 7 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 5 , 7 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 5 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 5 , 7 , 255 , 255 , 255 , 255 } ,
{ 2 , 5 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 5 , 7 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 5 , 7 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 5 , 7 , 255 , 255 , 255 } ,
{ 3 , 5 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 3 , 5 , 7 , 255 , 255 , 255 , 255 } ,
{ 1 , 3 , 5 , 7 , 255 , 255 , 255 , 255 } , { 0 , 1 , 3 , 5 , 7 , 255 , 255 , 255 } ,
{ 2 , 3 , 5 , 7 , 255 , 255 , 255 , 255 } , { 0 , 2 , 3 , 5 , 7 , 255 , 255 , 255 } ,
{ 1 , 2 , 3 , 5 , 7 , 255 , 255 , 255 } , { 0 , 1 , 2 , 3 , 5 , 7 , 255 , 255 } ,
{ 4 , 5 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 4 , 5 , 7 , 255 , 255 , 255 , 255 } ,
{ 1 , 4 , 5 , 7 , 255 , 255 , 255 , 255 } , { 0 , 1 , 4 , 5 , 7 , 255 , 255 , 255 } ,
{ 2 , 4 , 5 , 7 , 255 , 255 , 255 , 255 } , { 0 , 2 , 4 , 5 , 7 , 255 , 255 , 255 } ,
{ 1 , 2 , 4 , 5 , 7 , 255 , 255 , 255 } , { 0 , 1 , 2 , 4 , 5 , 7 , 255 , 255 } ,
{ 3 , 4 , 5 , 7 , 255 , 255 , 255 , 255 } , { 0 , 3 , 4 , 5 , 7 , 255 , 255 , 255 } ,
{ 1 , 3 , 4 , 5 , 7 , 255 , 255 , 255 } , { 0 , 1 , 3 , 4 , 5 , 7 , 255 , 255 } ,
{ 2 , 3 , 4 , 5 , 7 , 255 , 255 , 255 } , { 0 , 2 , 3 , 4 , 5 , 7 , 255 , 255 } ,
{ 1 , 2 , 3 , 4 , 5 , 7 , 255 , 255 } , { 0 , 1 , 2 , 3 , 4 , 5 , 7 , 255 } ,
{ 6 , 7 , 255 , 255 , 255 , 255 , 255 , 255 } , { 0 , 6 , 7 , 255 , 255 , 255 , 255 , 255 } ,
{ 1 , 6 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 1 , 6 , 7 , 255 , 255 , 255 , 255 } ,
{ 2 , 6 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 2 , 6 , 7 , 255 , 255 , 255 , 255 } ,
{ 1 , 2 , 6 , 7 , 255 , 255 , 255 , 255 } , { 0 , 1 , 2 , 6 , 7 , 255 , 255 , 255 } ,
{ 3 , 6 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 3 , 6 , 7 , 255 , 255 , 255 , 255 } ,
{ 1 , 3 , 6 , 7 , 255 , 255 , 255 , 255 } , { 0 , 1 , 3 , 6 , 7 , 255 , 255 , 255 } ,
{ 2 , 3 , 6 , 7 , 255 , 255 , 255 , 255 } , { 0 , 2 , 3 , 6 , 7 , 255 , 255 , 255 } ,
{ 1 , 2 , 3 , 6 , 7 , 255 , 255 , 255 } , { 0 , 1 , 2 , 3 , 6 , 7 , 255 , 255 } ,
{ 4 , 6 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 4 , 6 , 7 , 255 , 255 , 255 , 255 } ,
{ 1 , 4 , 6 , 7 , 255 , 255 , 255 , 255 } , { 0 , 1 , 4 , 6 , 7 , 255 , 255 , 255 } ,
{ 2 , 4 , 6 , 7 , 255 , 255 , 255 , 255 } , { 0 , 2 , 4 , 6 , 7 , 255 , 255 , 255 } ,
{ 1 , 2 , 4 , 6 , 7 , 255 , 255 , 255 } , { 0 , 1 , 2 , 4 , 6 , 7 , 255 , 255 } ,
{ 3 , 4 , 6 , 7 , 255 , 255 , 255 , 255 } , { 0 , 3 , 4 , 6 , 7 , 255 , 255 , 255 } ,
{ 1 , 3 , 4 , 6 , 7 , 255 , 255 , 255 } , { 0 , 1 , 3 , 4 , 6 , 7 , 255 , 255 } ,
{ 2 , 3 , 4 , 6 , 7 , 255 , 255 , 255 } , { 0 , 2 , 3 , 4 , 6 , 7 , 255 , 255 } ,
{ 1 , 2 , 3 , 4 , 6 , 7 , 255 , 255 } , { 0 , 1 , 2 , 3 , 4 , 6 , 7 , 255 } ,
{ 5 , 6 , 7 , 255 , 255 , 255 , 255 , 255 } , { 0 , 5 , 6 , 7 , 255 , 255 , 255 , 255 } ,
{ 1 , 5 , 6 , 7 , 255 , 255 , 255 , 255 } , { 0 , 1 , 5 , 6 , 7 , 255 , 255 , 255 } ,
{ 2 , 5 , 6 , 7 , 255 , 255 , 255 , 255 } , { 0 , 2 , 5 , 6 , 7 , 255 , 255 , 255 } ,
{ 1 , 2 , 5 , 6 , 7 , 255 , 255 , 255 } , { 0 , 1 , 2 , 5 , 6 , 7 , 255 , 255 } ,
{ 3 , 5 , 6 , 7 , 255 , 255 , 255 , 255 } , { 0 , 3 , 5 , 6 , 7 , 255 , 255 , 255 } ,
{ 1 , 3 , 5 , 6 , 7 , 255 , 255 , 255 } , { 0 , 1 , 3 , 5 , 6 , 7 , 255 , 255 } ,
{ 2 , 3 , 5 , 6 , 7 , 255 , 255 , 255 } , { 0 , 2 , 3 , 5 , 6 , 7 , 255 , 255 } ,
{ 1 , 2 , 3 , 5 , 6 , 7 , 255 , 255 } , { 0 , 1 , 2 , 3 , 5 , 6 , 7 , 255 } ,
{ 4 , 5 , 6 , 7 , 255 , 255 , 255 , 255 } , { 0 , 4 , 5 , 6 , 7 , 255 , 255 , 255 } ,
{ 1 , 4 , 5 , 6 , 7 , 255 , 255 , 255 } , { 0 , 1 , 4 , 5 , 6 , 7 , 255 , 255 } ,
{ 2 , 4 , 5 , 6 , 7 , 255 , 255 , 255 } , { 0 , 2 , 4 , 5 , 6 , 7 , 255 , 255 } ,
{ 1 , 2 , 4 , 5 , 6 , 7 , 255 , 255 } , { 0 , 1 , 2 , 4 , 5 , 6 , 7 , 255 } ,
{ 3 , 4 , 5 , 6 , 7 , 255 , 255 , 255 } , { 0 , 3 , 4 , 5 , 6 , 7 , 255 , 255 } ,
{ 1 , 3 , 4 , 5 , 6 , 7 , 255 , 255 } , { 0 , 1 , 3 , 4 , 5 , 6 , 7 , 255 } ,
{ 2 , 3 , 4 , 5 , 6 , 7 , 255 , 255 } , { 0 , 2 , 3 , 4 , 5 , 6 , 7 , 255 } ,
{ 1 , 2 , 3 , 4 , 5 , 6 , 7 , 255 } , { 0 , 1 , 2 , 3 , 4 , 5 , 6 , 7 } };
#endif

5
tests/Makefile.am
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@ -1,4 +1,4 @@
noinst_PROGRAMS = graph_tests packed_mphf_tests mphf_tests noinst_PROGRAMS = graph_tests packed_mphf_tests mphf_tests select_tests
INCLUDES = -I../src/ INCLUDES = -I../src/
@ -10,3 +10,6 @@ packed_mphf_tests_LDADD = ../src/libcmph.la
mphf_tests_SOURCES = mphf_tests.c mphf_tests_SOURCES = mphf_tests.c
mphf_tests_LDADD = ../src/libcmph.la mphf_tests_LDADD = ../src/libcmph.la
select_tests_SOURCES = select_tests.c
select_tests_LDADD = ../src/libcmph.la

96
tests/select_tests.c Normal file
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@ -0,0 +1,96 @@
#include "../src/select.h"
#define DEBUG
#include "../src/debug.h"
#include <stdlib.h>
static inline void print_values(select_t * sel)
{
register cmph_uint32 index;
index = select_query(sel, 0);
fprintf(stderr, "Index[0]\t= %u\n", index - 0);
index = select_next_query(sel, index);
fprintf(stderr, "Next Index\t= %u\n", index);
index = select_query(sel, 1);
fprintf(stderr, "Index[1]\t= %u\n", index - 1);
index = select_next_query(sel, index);
fprintf(stderr, "Next Index\t= %u\n", index);
index = select_query(sel, 2);
fprintf(stderr, "Index[2]\t= %u\n", index - 2);
index = select_next_query(sel, index);
fprintf(stderr, "Next Index\t= %u\n", index);
index = select_query(sel, 3);
fprintf(stderr, "Index[3]\t= %u\n", index - 3);
}
static inline void print_values_packed(char * sel_packed)
{
register cmph_uint32 index;
index = select_query_packed(sel_packed, 0);
fprintf(stderr, "Index[0]\t= %u\n", index - 0);
index = select_next_query_packed(sel_packed, index);
fprintf(stderr, "Next Index\t= %u\n", index);
index = select_query_packed(sel_packed, 1);
fprintf(stderr, "Index[1]\t= %u\n", index - 1);
index = select_next_query_packed(sel_packed, index);
fprintf(stderr, "Next Index\t= %u\n", index);
index = select_query_packed(sel_packed, 2);
fprintf(stderr, "Index[2]\t= %u\n", index - 2);
index = select_next_query_packed(sel_packed, index);
fprintf(stderr, "Next Index\t= %u\n", index);
index = select_query_packed(sel_packed, 3);
fprintf(stderr, "Index[3]\t= %u\n", index - 3);
}
int main(int argc, char **argv)
{
select_t sel;
cmph_uint32 n = 4;
cmph_uint32 keys_vec[4] = {0,1,2,3};
cmph_uint32 m = keys_vec[3];
char *buf = NULL;
cmph_uint32 buflen = 0;
char * select_packed = NULL;
cmph_uint32 select_pack_size = 0;
select_init(&sel, n, m);
select_generate(&sel, keys_vec);
fprintf(stderr, "Space usage = %f\n", select_get_space_usage(&sel));
print_values(&sel);
fprintf(stderr, "Dumping select structure\n");
select_dump(&sel, &buf, &buflen);
select_destroy(&sel);
fprintf(stderr, "Loading select structure\n");
select_load(&sel, buf, buflen);
print_values(&sel);
free(buf);;
select_pack_size = select_packed_size(&sel);
select_packed = (char *) calloc(select_pack_size, sizeof(char));
select_pack(&sel, select_packed);
fprintf(stderr, "Querying the packed select structure\n");
print_values_packed(select_packed);
free(select_packed);
return 0;
}