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Commit 64058d51 authored by Matthieu Schaller's avatar Matthieu Schaller
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Code formatting

parent 0d30b977
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src/common_io.c
View file @ 64058d51
......@@ -791,16 +791,19 @@ void io_duplicate_stars_gparts(struct threadpool* tp,
*
* @param parts The array of #part containing all particles.
* @param xparts The array of #xpart containing all particles.
* @param parts_written The array of #part to fill with particles we want to write.
* @param xparts_written The array of #xpart to fill with particles we want to write.
* @param parts_written The array of #part to fill with particles we want to
* write.
* @param xparts_written The array of #xpart to fill with particles we want to
* write.
* @param Nparts The total number of #part.
* @param Nparts_written The total number of #part to write.
*/
void io_collect_parts_to_write(const struct part* restrict parts,
const struct xpart* restrict xparts,
struct part* restrict parts_written,
struct xpart* restrict xparts_written,
const size_t Nparts, const size_t Nparts_written) {
const struct xpart* restrict xparts,
struct part* restrict parts_written,
struct xpart* restrict xparts_written,
const size_t Nparts,
const size_t Nparts_written) {
size_t count = 0;
......@@ -808,7 +811,7 @@ void io_collect_parts_to_write(const struct part* restrict parts,
for (size_t i = 0; i < Nparts; ++i) {
/* And collect the ones that have not been removed */
if(parts[i].time_bin != time_bin_inhibited) {
if (parts[i].time_bin != time_bin_inhibited) {
parts_written[count] = parts[i];
xparts_written[count] = xparts[i];
......@@ -826,13 +829,15 @@ void io_collect_parts_to_write(const struct part* restrict parts,
* @brief Copy every non-inhibited #spart into the sparts_written array.
*
* @param sparts The array of #spart containing all particles.
* @param sparts_written The array of #spart to fill with particles we want to write.
* @param sparts_written The array of #spart to fill with particles we want to
* write.
* @param Nsparts The total number of #part.
* @param Nsparts_written The total number of #part to write.
*/
void io_collect_sparts_to_write(const struct spart* restrict sparts,
struct spart* restrict sparts_written,
const size_t Nsparts, const size_t Nsparts_written) {
struct spart* restrict sparts_written,
const size_t Nsparts,
const size_t Nsparts_written) {
size_t count = 0;
......@@ -840,7 +845,7 @@ void io_collect_sparts_to_write(const struct spart* restrict sparts,
for (size_t i = 0; i < Nsparts; ++i) {
/* And collect the ones that have not been removed */
if(sparts[i].time_bin != time_bin_inhibited) {
if (sparts[i].time_bin != time_bin_inhibited) {
sparts_written[count] = sparts[i];
count++;
......@@ -857,13 +862,15 @@ void io_collect_sparts_to_write(const struct spart* restrict sparts,
* @brief Copy every non-inhibited DM #gpart into the gparts_written array.
*
* @param gparts The array of #gpart containing all particles.
* @param gparts_written The array of #gpart to fill with particles we want to write.
* @param gparts_written The array of #gpart to fill with particles we want to
* write.
* @param Ngparts The total number of #part.
* @param Ngparts_written The total number of #part to write.
*/
void io_collect_gparts_to_write(const struct gpart* restrict gparts,
struct gpart* restrict gparts_written,
const size_t Ngparts, const size_t Ngparts_written) {
struct gpart* restrict gparts_written,
const size_t Ngparts,
const size_t Ngparts_written) {
size_t count = 0;
......@@ -871,8 +878,8 @@ void io_collect_gparts_to_write(const struct gpart* restrict gparts,
for (size_t i = 0; i < Ngparts; ++i) {
/* And collect the ones that have not been removed */
if((gparts[i].time_bin != time_bin_inhibited) &&
(gparts[i].type == swift_type_dark_matter)) {
if ((gparts[i].time_bin != time_bin_inhibited) &&
(gparts[i].type == swift_type_dark_matter)) {
gparts_written[count] = gparts[i];
count++;
......
src/common_io.h
View file @ 64058d51
......@@ -93,16 +93,19 @@ size_t io_sizeof_type(enum IO_DATA_TYPE type);
int io_is_double_precision(enum IO_DATA_TYPE type);
void io_collect_parts_to_write(const struct part* restrict parts,
const struct xpart* restrict xparts,
struct part* restrict parts_written,
struct xpart* restrict xparts_written,
const size_t Nparts, const size_t Nparts_written);
const struct xpart* restrict xparts,
struct part* restrict parts_written,
struct xpart* restrict xparts_written,
const size_t Nparts,
const size_t Nparts_written);
void io_collect_sparts_to_write(const struct spart* restrict sparts,
struct spart* restrict sparts_written,
const size_t Nsparts, const size_t Nsparts_written);
struct spart* restrict sparts_written,
const size_t Nsparts,
const size_t Nsparts_written);
void io_collect_gparts_to_write(const struct gpart* restrict gparts,
struct gpart* restrict gparts_written,
const size_t Ngparts, const size_t Ngparts_written);
struct gpart* restrict gparts_written,
const size_t Ngparts,
const size_t Ngparts_written);
void io_prepare_dm_gparts(struct threadpool* tp, struct gpart* const gparts,
size_t Ndm);
void io_duplicate_hydro_gparts(struct threadpool* tp, struct part* const parts,
......
src/parallel_io.c
View file @ 64058d51
......@@ -1181,18 +1181,20 @@ void write_output_parallel(struct engine* e, const char* baseName,
const size_t Ntot = e->s->nr_gparts;
const size_t Ngas = e->s->nr_parts;
const size_t Nstars = e->s->nr_sparts;
//const size_t Nbaryons = Ngas + Nstars;
//const size_t Ndm = Ntot > 0 ? Ntot - Nbaryons : 0;
// const size_t Nbaryons = Ngas + Nstars;
// const size_t Ndm = Ntot > 0 ? Ntot - Nbaryons : 0;
/* Number of particles that we will write */
const size_t Ntot_written = e->s->nr_gparts - e->s->nr_inhibited_sparts;
const size_t Ntot_written = e->s->nr_gparts - e->s->nr_inhibited_sparts;
const size_t Ngas_written = e->s->nr_parts - e->s->nr_inhibited_parts;
const size_t Nstars_written = e->s->nr_sparts - e->s->nr_inhibited_gparts;
const size_t Nbaryons_written = Ngas_written + Nstars_written;
const size_t Ndm_written = Ntot_written > 0 ? Ntot_written - Nbaryons_written : 0;
const size_t Ndm_written =
Ntot_written > 0 ? Ntot_written - Nbaryons_written : 0;
/* Compute offset in the file and total number of particles */
size_t N[swift_type_count] = {Ngas_written, Ndm_written, 0, 0, Nstars_written, 0};
size_t N[swift_type_count] = {
Ngas_written, Ndm_written, 0, 0, Nstars_written, 0};
long long N_total[swift_type_count] = {0};
long long offset[swift_type_count] = {0};
MPI_Exscan(&N, &offset, swift_type_count, MPI_LONG_LONG_INT, MPI_SUM, comm);
......@@ -1347,93 +1349,94 @@ void write_output_parallel(struct engine* e, const char* baseName,
struct xpart* xparts_written = NULL;
struct gpart* gparts_written = NULL;
struct spart* sparts_written = NULL;
/* Write particle fields from the particle structure */
switch (ptype) {
case swift_type_gas:
{
if (Ngas == Ngas_written) {
/* No inhibted particles: easy case */
Nparticles = Ngas;
hydro_write_particles(parts, xparts, list, &num_fields);
num_fields += chemistry_write_particles(parts, list + num_fields);
num_fields += cooling_write_particles(xparts, list + num_fields, e->cooling_func);
}
else {
/* Ok, we need to fish out the particles we want */
Nparticles = Ngas_written;
/* Allocate temporary arrays */
if (posix_memalign((void**)&parts_written, part_align, Ngas_written * sizeof(struct part)) != 0)
error("Error while allocating temporart memory for parts");
if (posix_memalign((void**)&xparts_written, xpart_align, Ngas_written * sizeof(struct xpart)) != 0)
error("Error while allocating temporart memory for xparts");
/* Collect the particles we want to write */
io_collect_parts_to_write(parts, xparts, parts_written, xparts_written, Ngas, Ngas_written);
/* Select the fields to write */
hydro_write_particles(parts_written, xparts_written, list, &num_fields);
num_fields += chemistry_write_particles(parts_written, list + num_fields);
num_fields += cooling_write_particles(xparts_written, list + num_fields, e->cooling_func);
}
}
break;
case swift_type_gas: {
if (Ngas == Ngas_written) {
/* No inhibted particles: easy case */
Nparticles = Ngas;
hydro_write_particles(parts, xparts, list, &num_fields);
num_fields += chemistry_write_particles(parts, list + num_fields);
num_fields += cooling_write_particles(xparts, list + num_fields,
e->cooling_func);
} else {
/* Ok, we need to fish out the particles we want */
Nparticles = Ngas_written;
/* Allocate temporary arrays */
if (posix_memalign((void**)&parts_written, part_align,
Ngas_written * sizeof(struct part)) != 0)
error("Error while allocating temporart memory for parts");
if (posix_memalign((void**)&xparts_written, xpart_align,
Ngas_written * sizeof(struct xpart)) != 0)
error("Error while allocating temporart memory for xparts");
/* Collect the particles we want to write */
io_collect_parts_to_write(parts, xparts, parts_written,
xparts_written, Ngas, Ngas_written);
/* Select the fields to write */
hydro_write_particles(parts_written, xparts_written, list,
&num_fields);
num_fields +=
chemistry_write_particles(parts_written, list + num_fields);
num_fields += cooling_write_particles(
xparts_written, list + num_fields, e->cooling_func);
}
} break;
case swift_type_dark_matter:
{
if(Ntot == Ndm_written) {
/* This is a DM-only run without inhibited particles */
Nparticles = Ntot;
darkmatter_write_particles(gparts, list, &num_fields);
}
else {
/* Ok, we need to fish out the particles we want */
Nparticles = Ndm_written;
/* Allocate temporary array */
if (posix_memalign((void**)&gparts_written, gpart_align, Ndm_written * sizeof(struct gpart)) != 0)
error("Error while allocating temporart memory for gparts");
/* Collect the non-inhibited DM particles from gpart */
io_collect_gparts_to_write(gparts, gparts_written, Ntot, Ndm_written);
/* Write DM particles */
darkmatter_write_particles(gparts_written, list, &num_fields);
}
}
break;
case swift_type_dark_matter: {
if (Ntot == Ndm_written) {
case swift_type_stars:
{
if(Nstars == Nstars_written) {
/* This is a DM-only run without inhibited particles */
Nparticles = Ntot;
darkmatter_write_particles(gparts, list, &num_fields);
} else {
/* No inhibted particles: easy case */
Nparticles = Nstars;
stars_write_particles(sparts, list, &num_fields);
}
else {
/* Ok, we need to fish out the particles we want */
Nparticles = Ndm_written;
/* Ok, we need to fish out the particles we want */
Nparticles = Nstars_written;
/* Allocate temporary array */
if (posix_memalign((void**)&gparts_written, gpart_align,
Ndm_written * sizeof(struct gpart)) != 0)
error("Error while allocating temporart memory for gparts");
/* Allocate temporary arrays */
if (posix_memalign((void**)&sparts_written, spart_align, Nstars_written * sizeof(struct spart)) != 0)
error("Error while allocating temporart memory for sparts");
/* Collect the non-inhibited DM particles from gpart */
io_collect_gparts_to_write(gparts, gparts_written, Ntot, Ndm_written);
/* Collect the particles we want to write */
io_collect_sparts_to_write(sparts, sparts_written, Nstars, Nstars_written);
/* Write DM particles */
darkmatter_write_particles(gparts_written, list, &num_fields);
}
} break;
/* Select the fields to write */
stars_write_particles(sparts, list, &num_fields);
}
}
break;
case swift_type_stars: {
if (Nstars == Nstars_written) {
/* No inhibted particles: easy case */
Nparticles = Nstars;
stars_write_particles(sparts, list, &num_fields);
} else {
/* Ok, we need to fish out the particles we want */
Nparticles = Nstars_written;
/* Allocate temporary arrays */
if (posix_memalign((void**)&sparts_written, spart_align,
Nstars_written * sizeof(struct spart)) != 0)
error("Error while allocating temporart memory for sparts");
/* Collect the particles we want to write */
io_collect_sparts_to_write(sparts, sparts_written, Nstars,
Nstars_written);
/* Select the fields to write */
stars_write_particles(sparts, list, &num_fields);
}
} break;
default:
error("Particle Type %d not yet supported. Aborting", ptype);
......@@ -1455,10 +1458,10 @@ void write_output_parallel(struct engine* e, const char* baseName,
}
/* Free temporary array */
if(parts_written) free(parts_written);
if(xparts_written) free(xparts_written);
if(gparts_written) free(gparts_written);
if(sparts_written) free(sparts_written);
if (parts_written) free(parts_written);
if (xparts_written) free(xparts_written);
if (gparts_written) free(gparts_written);
if (sparts_written) free(sparts_written);
#ifdef IO_SPEED_MEASUREMENT
MPI_Barrier(MPI_COMM_WORLD);
......
src/serial_io.c
View file @ 64058d51
......@@ -752,15 +752,16 @@ void write_output_serial(struct engine* e, const char* baseName,
const size_t Ntot = e->s->nr_gparts;
const size_t Ngas = e->s->nr_parts;
const size_t Nstars = e->s->nr_sparts;
//const size_t Nbaryons = Ngas + Nstars;
//const size_t Ndm = Ntot > 0 ? Ntot - Nbaryons : 0;
// const size_t Nbaryons = Ngas + Nstars;
// const size_t Ndm = Ntot > 0 ? Ntot - Nbaryons : 0;
/* Number of particles that we will write */
const size_t Ntot_written = e->s->nr_gparts - e->s->nr_inhibited_sparts;
const size_t Ntot_written = e->s->nr_gparts - e->s->nr_inhibited_sparts;
const size_t Ngas_written = e->s->nr_parts - e->s->nr_inhibited_parts;
const size_t Nstars_written = e->s->nr_sparts - e->s->nr_inhibited_gparts;
const size_t Nbaryons_written = Ngas_written + Nstars_written;
const size_t Ndm_written = Ntot_written > 0 ? Ntot_written - Nbaryons_written : 0;
const size_t Ndm_written =
Ntot_written > 0 ? Ntot_written - Nbaryons_written : 0;
/* File name */
char fileName[FILENAME_BUFFER_SIZE];
......@@ -772,7 +773,8 @@ void write_output_serial(struct engine* e, const char* baseName,
e->snapshot_output_count);
/* Compute offset in the file and total number of particles */
size_t N[swift_type_count] = {Ngas_written, Ndm_written, 0, 0, Nstars_written, 0};
size_t N[swift_type_count] = {
Ngas_written, Ndm_written, 0, 0, Nstars_written, 0};
long long N_total[swift_type_count] = {0};
long long offset[swift_type_count] = {0};
MPI_Exscan(&N, &offset, swift_type_count, MPI_LONG_LONG_INT, MPI_SUM, comm);
......@@ -1018,97 +1020,99 @@ void write_output_serial(struct engine* e, const char* baseName,
struct io_props list[100];
size_t Nparticles = 0;
struct part* parts_written = NULL;
struct xpart* xparts_written = NULL;
struct gpart* gparts_written = NULL;
struct spart* sparts_written = NULL;
struct part* parts_written = NULL;
struct xpart* xparts_written = NULL;
struct gpart* gparts_written = NULL;
struct spart* sparts_written = NULL;
/* Write particle fields from the particle structure */
switch (ptype) {
case swift_type_gas:
{
if (Ngas == Ngas_written) {
/* No inhibted particles: easy case */
Nparticles = Ngas;
hydro_write_particles(parts, xparts, list, &num_fields);
num_fields += chemistry_write_particles(parts, list + num_fields);
num_fields += cooling_write_particles(xparts, list + num_fields, e->cooling_func);
}
else {
/* Ok, we need to fish out the particles we want */
Nparticles = Ngas_written;
/* Allocate temporary arrays */
if (posix_memalign((void**)&parts_written, part_align, Ngas_written * sizeof(struct part)) != 0)
error("Error while allocating temporart memory for parts");
if (posix_memalign((void**)&xparts_written, xpart_align, Ngas_written * sizeof(struct xpart)) != 0)
error("Error while allocating temporart memory for xparts");
/* Collect the particles we want to write */
io_collect_parts_to_write(parts, xparts, parts_written, xparts_written, Ngas, Ngas_written);
/* Select the fields to write */
hydro_write_particles(parts_written, xparts_written, list, &num_fields);
num_fields += chemistry_write_particles(parts_written, list + num_fields);
num_fields += cooling_write_particles(xparts_written, list + num_fields, e->cooling_func);
}
}
break;
case swift_type_gas: {
if (Ngas == Ngas_written) {
/* No inhibted particles: easy case */
Nparticles = Ngas;
hydro_write_particles(parts, xparts, list, &num_fields);
num_fields += chemistry_write_particles(parts, list + num_fields);
num_fields += cooling_write_particles(xparts, list + num_fields,
e->cooling_func);
} else {
/* Ok, we need to fish out the particles we want */
Nparticles = Ngas_written;
/* Allocate temporary arrays */
if (posix_memalign((void**)&parts_written, part_align,
Ngas_written * sizeof(struct part)) != 0)
error("Error while allocating temporart memory for parts");
if (posix_memalign((void**)&xparts_written, xpart_align,
Ngas_written * sizeof(struct xpart)) != 0)
error("Error while allocating temporart memory for xparts");
/* Collect the particles we want to write */
io_collect_parts_to_write(parts, xparts, parts_written,
xparts_written, Ngas, Ngas_written);
/* Select the fields to write */
hydro_write_particles(parts_written, xparts_written, list,
&num_fields);
num_fields +=
chemistry_write_particles(parts_written, list + num_fields);
num_fields += cooling_write_particles(
xparts_written, list + num_fields, e->cooling_func);
}
} break;
case swift_type_dark_matter:
{
if(Ntot == Ndm_written) {
/* This is a DM-only run without inhibited particles */
Nparticles = Ntot;
darkmatter_write_particles(gparts, list, &num_fields);
}
else {
/* Ok, we need to fish out the particles we want */
Nparticles = Ndm_written;
/* Allocate temporary array */
if (posix_memalign((void**)&gparts_written, gpart_align, Ndm_written * sizeof(struct gpart)) != 0)
error("Error while allocating temporart memory for gparts");
/* Collect the non-inhibited DM particles from gpart */
io_collect_gparts_to_write(gparts, gparts_written, Ntot, Ndm_written);
/* Write DM particles */
darkmatter_write_particles(gparts_written, list, &num_fields);
}
}
break;
case swift_type_stars:
{
if(Nstars == Nstars_written) {
/* No inhibted particles: easy case */
Nparticles = Nstars;
stars_write_particles(sparts, list, &num_fields);
}
else {
/* Ok, we need to fish out the particles we want */
Nparticles = Nstars_written;
/* Allocate temporary arrays */
if (posix_memalign((void**)&sparts_written, spart_align, Nstars_written * sizeof(struct spart)) != 0)
error("Error while allocating temporart memory for sparts");
/* Collect the particles we want to write */
io_collect_sparts_to_write(sparts, sparts_written, Nstars, Nstars_written);
/* Select the fields to write */
stars_write_particles(sparts, list, &num_fields);
}
}
break;
case swift_type_dark_matter: {
if (Ntot == Ndm_written) {
/* This is a DM-only run without inhibited particles */
Nparticles = Ntot;
darkmatter_write_particles(gparts, list, &num_fields);
} else {
/* Ok, we need to fish out the particles we want */
Nparticles = Ndm_written;
/* Allocate temporary array */
if (posix_memalign((void**)&gparts_written, gpart_align,
Ndm_written * sizeof(struct gpart)) != 0)
error("Error while allocating temporart memory for gparts");
/* Collect the non-inhibited DM particles from gpart */
io_collect_gparts_to_write(gparts, gparts_written, Ntot,
Ndm_written);
/* Write DM particles */
darkmatter_write_particles(gparts_written, list, &num_fields);
}
} break;
case swift_type_stars: {
if (Nstars == Nstars_written) {
/* No inhibted particles: easy case */
Nparticles = Nstars;
stars_write_particles(sparts, list, &num_fields);
} else {
/* Ok, we need to fish out the particles we want */
Nparticles = Nstars_written;
/* Allocate temporary arrays */
if (posix_memalign((void**)&sparts_written, spart_align,
Nstars_written * sizeof(struct spart)) != 0)
error("Error while allocating temporart memory for sparts");
/* Collect the particles we want to write */
io_collect_sparts_to_write(sparts, sparts_written, Nstars,
Nstars_written);
/* Select the fields to write */
stars_write_particles(sparts, list, &num_fields);
}
} break;
default:
error("Particle Type %d not yet supported. Aborting", ptype);
......@@ -1130,10 +1134,10 @@ void write_output_serial(struct engine* e, const char* baseName,
}
/* Free temporary array */
if(parts_written) free(parts_written);
if(xparts_written) free(xparts_written);
if(gparts_written) free(gparts_written);
if(sparts_written) free(sparts_written);
if (parts_written) free(parts_written);
if (xparts_written) free(xparts_written);
if (gparts_written) free(gparts_written);
if (sparts_written) free(sparts_written);
/* Close particle group */
H5Gclose(h_grp);
......
src/single_io.c
View file @ 64058d51
......@@ -610,24 +610,29 @@ void write_output_single(struct engine* e, const char* baseName,
const struct gpart* gparts = e->s->gparts;
const struct spart* sparts = e->s->sparts;
struct swift_params* params = e->parameter_file;
/* Number of particles currently in the arrays */
const size_t Ntot = e->s->nr_gparts;
const size_t Ngas = e->s->nr_parts;
const size_t Nstars = e->s->nr_sparts;
//const size_t Nbaryons = Ngas + Nstars;
//const size_t Ndm = Ntot > 0 ? Ntot - Nbaryons : 0;
// const size_t Nbaryons = Ngas + Nstars;
// const size_t Ndm = Ntot > 0 ? Ntot - Nbaryons : 0;
/* Number of particles that we will write */
const size_t Ntot_written = e->s->nr_gparts - e->s->nr_inhibited_sparts;
const size_t Ntot_written = e->s->nr_gparts - e->s->nr_inhibited_sparts;
const size_t Ngas_written = e->s->nr_parts - e->s->nr_inhibited_parts;
const size_t Nstars_written = e->s->nr_sparts - e->s->nr_inhibited_gparts;
const size_t Nbaryons_written = Ngas_written + Nstars_written;
const size_t Ndm_written = Ntot_written > 0 ? Ntot_written - Nbaryons_written : 0;
const size_t Ndm_written =
Ntot_written > 0 ? Ntot_written - Nbaryons_written : 0;
/* Format things in a Gadget-friendly array */
long long N_total[swift_type_count] = {
(long long)Ngas_written, (long long)Ndm_written, 0, 0, (long long)Nstars_written, 0};
long long N_total[swift_type_count] = {(long long)Ngas_written,
(long long)Ndm_written,
0,
0,
(long long)Nstars_written,
0};
/* File name */
char fileName[FILENAME_BUFFER_SIZE];
......@@ -843,89 +848,90 @@ void write_output_single(struct engine* e, const char* baseName,
/* Write particle fields from the particle structure */
switch (ptype) {
case swift_type_gas:
{
if (Ngas == Ngas_written) {
/* No inhibted particles: easy case */
N = Ngas;
hydro_write_particles(parts, xparts, list, &num_fields);
num_fields += chemistry_write_particles(parts, list + num_fields);
num_fields += cooling_write_particles(xparts, list + num_fields, e->cooling_func);
}