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optional HDF5 compilation

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via configure script and pre-processor macros
This commit is contained in:
q-posev 2021-11-01 11:55:34 +01:00
parent 33078eeee4
commit d42dc7f449
4 changed files with 105 additions and 43 deletions
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57
Makefile.am
View File

@ -36,10 +36,6 @@ ACLOCAL_AMFLAGS = -I m4
CLEANFILES = trexio.mod
BUILT_SOURCES = trexio.mod
VERSION_MAJOR = @VERSION_MAJOR@
VERSION_MINOR = @VERSION_MINOR@
VERSION_PATCH = @VERSION_PATCH@
SUBDIRS =
pkgconfigdir = $(libdir)/pkgconfig
@ -62,11 +58,16 @@ SOURCES = \
src/trexio.c \
src/trexio_private.h \
src/trexio_s.h \
src/trexio_hdf5.c \
src/trexio_hdf5.h \
src/trexio_text.c \
src/trexio_text.h
if DO_HDF5
SOURCES += src/trexio_hdf5.c \
src/trexio_hdf5.h
endif
ORG_FILES = \
src/templates_front/templator_front.org \
src/templates_text/templator_text.org \
@ -79,24 +80,30 @@ src_libtrexio_la_SOURCES = $(SOURCES)
# =============== TESTS =============== #
TESTS_C = \
tests/open_hdf5 \
tests/open_text \
tests/io_num_hdf5 \
tests/io_num_text \
tests/io_dset_float_hdf5 \
tests/io_dset_float_text \
tests/io_dset_int_hdf5 \
tests/io_dset_int_text \
tests/io_safe_dset_float_hdf5 \
tests/io_safe_dset_float_text \
tests/io_str_hdf5 \
tests/io_str_text \
tests/io_dset_str_hdf5 \
tests/io_dset_str_text \
tests/overwrite_all_hdf5 \
tests/overwrite_all_text \
tests/io_all
if DO_HDF5
TESTS_C += \
tests/open_hdf5 \
tests/io_num_hdf5 \
tests/io_dset_float_hdf5 \
tests/io_dset_int_hdf5 \
tests/io_safe_dset_float_hdf5 \
tests/io_str_hdf5 \
tests/io_dset_str_hdf5 \
tests/overwrite_all_hdf5
endif
TESTS_F = \
tests/test_f
@ -108,24 +115,30 @@ LDADD = src/libtrexio.la
# in principal, specifying -no-install (see below) is not mandatory
# for the tests to compile and pass, but the produced test binaries differ
tests_open_hdf5_LDFLAGS = -no-install
tests_open_text_LDFLAGS = -no-install
tests_io_num_hdf5_LDFLAGS = -no-install
tests_io_num_text_LDFLAGS = -no-install
tests_io_dset_float_hdf5_LDFLAGS = -no-install
tests_io_dset_float_text_LDFLAGS = -no-install
tests_io_dset_int_hdf5_LDFLAGS = -no-install
tests_io_dset_int_text_LDFLAGS = -no-install
tests_io_safe_dset_float_hdf5_LDFLAGS = -no-install
tests_io_safe_dset_float_text_LDFLAGS = -no-install
tests_io_str_hdf5_LDFLAGS = -no-install
tests_io_str_text_LDFLAGS = -no-install
tests_io_dset_str_hdf5_LDFLAGS = -no-install
tests_io_dset_str_text_LDFLAGS = -no-install
tests_overwrite_all_hdf5_LDFLAGS = -no-install
tests_overwrite_all_text_LDFLAGS = -no-install
tests_io_all_LDFLAGS = -no-install
if DO_HDF5
tests_open_hdf5_LDFLAGS = -no-install
tests_io_num_hdf5_LDFLAGS = -no-install
tests_io_dset_float_hdf5_LDFLAGS = -no-install
tests_io_dset_int_hdf5_LDFLAGS = -no-install
tests_io_safe_dset_float_hdf5_LDFLAGS = -no-install
tests_io_str_hdf5_LDFLAGS = -no-install
tests_io_dset_str_hdf5_LDFLAGS = -no-install
tests_overwrite_all_hdf5_LDFLAGS = -no-install
endif
test_trexio_f = $(srcdir)/tests/trexio_f.f90
$(test_trexio_f): $(trexio_f)

14
configure.ac
View File

@ -14,13 +14,9 @@ AC_CONFIG_MACRO_DIR([m4])
VERSION_MAJOR=`echo ${PACKAGE_VERSION} | cut -d. -f1`
VERSION_MINOR=`echo ${PACKAGE_VERSION} | cut -d. -f2`
VERSION_PATCH=`echo ${PACKAGE_VERSION} | cut -d. -f3 | cut -d- -f1`
AC_DEFINE_UNQUOTED(TREXIO_PACKAGE_VERSION, ["${PACKAGE_VERSION}"], [full version])
AC_DEFINE_UNQUOTED(TREXIO_VERSION_MAJOR, [$VERSION_MAJOR], [major version])
AC_DEFINE_UNQUOTED(TREXIO_VERSION_MINOR, [$VERSION_MINOR], [minor version])
AC_DEFINE_UNQUOTED(TREXIO_VERSION_PATCH, [$VERSION_PATCH], [patch version])
AC_SUBST([VERSION_MAJOR])
AC_SUBST([VERSION_MINOR])
AC_SUBST([VERSION_PATCH])
AC_DEFINE_UNQUOTED(VERSION_MAJOR, [$VERSION_MAJOR], [major version])
AC_DEFINE_UNQUOTED(VERSION_MINOR, [$VERSION_MINOR], [minor version])
AC_DEFINE_UNQUOTED(VERSION_PATCH, [$VERSION_PATCH], [patch version])
## Save system information, e.g. user name
@ -110,6 +106,8 @@ AC_SUBST([PKG_HDF5])
AC_SUBST([PKG_CFLAGS])
AC_SUBST([PKG_LIBS])
AM_CONDITIONAL([DO_HDF5],[test "$with_hdf5" = "yes"])
# The block below should only execute if the ax_lib_hdf5.m4 macro failed to find HDF5.
# It is only needed to manually build Python API because setup.py depends on HDF5.
@ -203,7 +201,7 @@ CC ............: ${CC}
CPPFLAGS ......: ${CPPFLAGS}
CFLAGS ........: ${CFLAGS}
FC ............: ${FC}
FCLAGS ........: ${FCFLAGS}
FCFLAGS .......: ${FCFLAGS}
LDFLAGS .......: ${LDFLAGS}
LIBS ..........: ${LIBS}

20
src/templates_front/build.sh
View File

@ -4,20 +4,20 @@
cat prefix_front.c > trexio.c
cat prefix_front.h > trexio.h
# parse the config-defined version attributes to pass them to Fortran module file
VERSION_VAL=`grep "PACKAGE_VERSION" ../../include/config.h | cut -d " " -f 3`
VERSION_MAJOR_VAL=`grep "VERSION_MAJOR" ../../include/config.h | cut -d " " -f 3`
VERSION_MINOR_VAL=`grep "VERSION_MINOR" ../../include/config.h | cut -d " " -f 3`
VERSION_PATCH_VAL=`grep "VERSION_PATCH" ../../include/config.h | cut -d " " -f 3`
# grep some usefull constants from the config.h
echo "" >> trexio.h
grep "TREXIO_PACKAGE_VERSION" ../../include/config.h >> trexio.h
grep "TREXIO_VERSION_MAJOR" ../../include/config.h >> trexio.h
grep "TREXIO_VERSION_MINOR" ../../include/config.h >> trexio.h
grep "TREXIO_VERSION_PATCH" ../../include/config.h >> trexio.h
echo "#define TREXIO_PACKAGE_VERSION ${VERSION_VAL}" >> trexio.h
echo "#define TREXIO_VERSION_MAJOR ${VERSION_MAJOR_VAL}" >> trexio.h
echo "#define TREXIO_VERSION_MINOR ${VERSION_MINOR_VAL}" >> trexio.h
echo "#define TREXIO_VERSION_PATCH ${VERSION_PATCH_VAL}" >> trexio.h
echo "" >> trexio.h
# parse the config-defined version attributes to pass them to Fortran module file
VERSION_VAL=`grep "TREXIO_PACKAGE_VERSION" ../../include/config.h | cut -d " " -f 3`
VERSION_MAJOR_VAL=`grep "TREXIO_VERSION_MAJOR" ../../include/config.h | cut -d " " -f 3`
VERSION_MINOR_VAL=`grep "TREXIO_VERSION_MINOR" ../../include/config.h | cut -d " " -f 3`
VERSION_PATCH_VAL=`grep "TREXIO_VERSION_PATCH" ../../include/config.h | cut -d " " -f 3`
cat prefix_s_front.h > trexio_s.h
cat prefix_fortran.f90 > trexio_f.f90
cat prefix_python.py > trexio.py

53
src/templates_front/templator_front.org
View File

@ -32,6 +32,11 @@ typedef int32_t trexio_exit_code;
#+begin_src c :tangle prefix_front.c :noweb yes
<<header>>
#ifdef HAVE_CONFIG_H
#include "config.h"
#endif
#include <pthread.h>
#include <assert.h>
#include <stdlib.h>
@ -42,7 +47,9 @@ typedef int32_t trexio_exit_code;
#include "trexio_private.h"
#include "trexio_s.h"
#include "trexio_text.h"
#include "trexio_hdf5.h"
#ifdef HAVE_HDF5
#include "trexio_hdf5.h"
#endif
/*
#include "trexio_json.h"
,*/
@ -739,9 +746,11 @@ trexio_open(const char* file_name, const char mode,
result_tmp = malloc(sizeof(trexio_text_t));
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
result_tmp = malloc(sizeof(trexio_hdf5_t));
break;
#endif
/*
case TREXIO_JSON:
result = (trexio_t*) malloc (sizeof(trexio_json_t));
@ -790,9 +799,11 @@ trexio_open(const char* file_name, const char mode,
rc = trexio_text_init(result);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
rc = trexio_hdf5_init(result);
break;
#endif
/*
case TREXIO_JSON:
rc = trexio_json_init(result);
@ -820,9 +831,11 @@ trexio_open(const char* file_name, const char mode,
rc = trexio_text_write_metadata_package_version(result, TREXIO_PACKAGE_VERSION);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
rc = trexio_hdf5_write_metadata_package_version(result, TREXIO_PACKAGE_VERSION);
break;
#endif
/*
case TREXIO_JSON:
rc = trexio_json_write_metadata_package_version(result, TREXIO_PACKAGE_VERSION);
@ -848,9 +861,11 @@ trexio_open(const char* file_name, const char mode,
rc = trexio_text_lock(result);
break;
/* HDF5 v.>=1.10 has file locking activated by default */
#ifdef HAVE_HDF5
case TREXIO_HDF5:
rc = TREXIO_SUCCESS;
break;
#endif
/*
case TREXIO_JSON:
rc = trexio_json_lock(result);
@ -992,9 +1007,11 @@ trexio_close (trexio_t* file)
rc = trexio_text_deinit(file);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
rc = trexio_hdf5_deinit(file);
break;
#endif
/*
case TREXIO_JSON:
rc = trexio_json_deinit(file);
@ -1017,9 +1034,11 @@ trexio_close (trexio_t* file)
rc = trexio_text_unlock(file);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
rc = TREXIO_SUCCESS;
break;
#endif
/*
case TREXIO_JSON:
rc = trexio_json_unlock(file);
@ -1201,9 +1220,11 @@ trexio_read_$group_num$_64 (trexio_t* const file, $group_num_dtype_double$* cons
return trexio_text_read_$group_num$(file, num);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
return trexio_hdf5_read_$group_num$(file, num);
break;
#endif
/*
case TREXIO_JSON:
return trexio_json_read_$group_num$(file, num);
@ -1229,9 +1250,11 @@ trexio_write_$group_num$_64 (trexio_t* const file, const $group_num_dtype_double
return trexio_text_write_$group_num$(file, num);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
return trexio_hdf5_write_$group_num$(file, num);
break;
#endif
/*
case TREXIO_JSON:
return trexio_json_write_$group_num$(file, num);
@ -1261,9 +1284,11 @@ trexio_read_$group_num$_32 (trexio_t* const file, $group_num_dtype_single$* cons
rc = trexio_text_read_$group_num$(file, &num_64);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
rc = trexio_hdf5_read_$group_num$(file, &num_64);
break;
#endif
/*
case TREXIO_JSON:
rc =trexio_json_read_$group_num$(file, &num_64);
@ -1293,9 +1318,11 @@ trexio_write_$group_num$_32 (trexio_t* const file, const $group_num_dtype_single
return trexio_text_write_$group_num$(file, ($group_num_dtype_double$) num);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
return trexio_hdf5_write_$group_num$(file, ($group_num_dtype_double$) num);
break;
#endif
/*
case TREXIO_JSON:
return trexio_json_write_$group_num$(file, ($group_num_dtype_double$) num);
@ -1340,9 +1367,11 @@ trexio_has_$group_num$ (trexio_t* const file)
return trexio_text_has_$group_num$(file);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
return trexio_hdf5_has_$group_num$(file);
break;
#endif
/*
case TREXIO_JSON:
return trexio_json_has_$group_num$(file);
@ -1583,9 +1612,11 @@ trexio_read_$group_dset$_64 (trexio_t* const file, $group_dset_dtype_double$* co
rc = trexio_text_read_$group_dset$(file, $group_dset$, rank, dims);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
rc = trexio_hdf5_read_$group_dset$(file, $group_dset$, rank, dims);
break;
#endif
/*
case TREXIO_JSON:
rc = trexio_json_read_$group_dset$(file, $group_dset$, rank, dims);
@ -1657,9 +1688,11 @@ trexio_write_$group_dset$_64 (trexio_t* const file, const $group_dset_dtype_doub
rc = trexio_text_write_$group_dset$(file, $group_dset$_p, rank, dims);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
rc = trexio_hdf5_write_$group_dset$(file, $group_dset$_p, rank, dims);
break;
#endif
/*
case TREXIO_JSON:
rc = trexio_json_write_$group_dset$(file, $group_dset$_p, rank, dims);
@ -1717,9 +1750,11 @@ trexio_read_$group_dset$_32 (trexio_t* const file, $group_dset_dtype_single$* co
rc = trexio_text_read_$group_dset$(file, $group_dset$_64, rank, dims);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
rc = trexio_hdf5_read_$group_dset$(file, $group_dset$_64, rank, dims);
break;
#endif
/*
case TREXIO_JSON:
rc = trexio_json_read_$group_dset$(file, $group_dset$_64, rank, dims);
@ -1796,9 +1831,11 @@ trexio_write_$group_dset$_32 (trexio_t* const file, const $group_dset_dtype_sing
rc = trexio_text_write_$group_dset$(file, $group_dset$_64, rank, dims);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
rc = trexio_hdf5_write_$group_dset$(file, $group_dset$_64, rank, dims);
break;
#endif
/*
case TREXIO_JSON:
rc = trexio_json_write_$group_dset$(file, $group_dset$_64, rank, dims);
@ -1960,9 +1997,11 @@ trexio_has_$group_dset$ (trexio_t* const file)
return trexio_text_has_$group_dset$(file);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
return trexio_hdf5_has_$group_dset$(file);
break;
#endif
/*
case TREXIO_JSON:
return trexio_json_has_$group_dset$(file);
@ -2405,9 +2444,11 @@ trexio_read_$group_dset$_low (trexio_t* const file, char* dset_out, const int32_
return trexio_text_read_$group_dset$(file, dset_out, rank, dims, (uint32_t) max_str_len);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
return trexio_hdf5_read_$group_dset$(file, dset_out, rank, dims, (uint32_t) max_str_len);
break;
#endif
/*
case TREXIO_JSON:
rc = trexio_json_read_$group_dset$(file, dset_out, rank, dims);
@ -2529,9 +2570,11 @@ trexio_write_$group_dset$_low (trexio_t* const file, const char* dset_in, const
rc = trexio_text_write_$group_dset$(file, (const char**) dset_str, rank, dims);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
rc = trexio_hdf5_write_$group_dset$(file, (const char**) dset_str, rank, dims);
break;
#endif
/*
case TREXIO_JSON:
rc = trexio_json_write_$group_dset$(file, dset, rank, dims);
@ -2597,9 +2640,11 @@ trexio_has_$group_dset$ (trexio_t* const file)
return trexio_text_has_$group_dset$(file);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
return trexio_hdf5_has_$group_dset$(file);
break;
#endif
/*
case TREXIO_JSON:
return trexio_json_has_$group_dset$(file);
@ -2846,9 +2891,11 @@ trexio_read_$group_str$ (trexio_t* const file, char* const str_out, const int32_
return trexio_text_read_$group_str$(file, str_out, (uint32_t) max_str_len);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
return trexio_hdf5_read_$group_str$(file, str_out, (uint32_t) max_str_len);
break;
#endif
/*
case TREXIO_JSON:
return trexio_json_read_$group_str$(file, str);
@ -2879,9 +2926,11 @@ trexio_write_$group_str$ (trexio_t* const file, const char* str, const int32_t m
return trexio_text_write_$group_str$(file, str);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
return trexio_hdf5_write_$group_str$(file, str);
break;
#endif
/*
case TREXIO_JSON:
return trexio_json_write_$group_str$(file, str);
@ -2908,9 +2957,11 @@ trexio_has_$group_str$ (trexio_t* const file)
return trexio_text_has_$group_str$(file);
break;
#ifdef HAVE_HDF5
case TREXIO_HDF5:
return trexio_hdf5_has_$group_str$(file);
break;
#endif
/*
case TREXIO_JSON:
return trexio_json_has_$group_str$(file);