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Commit 01929289 authored by Jonas Schmitt's avatar Jonas Schmitt
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Integrated anydsl-md repository

parent 39cda575
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apps/CMakeLists.txt
View file @ 01929289
......@@ -22,6 +22,8 @@ else ()
add_subdirectory ( tutorials EXCLUDE_FROM_ALL )
endif()
add_subdirectory ( anydsl )
# Python module
if ( WALBERLA_BUILD_WITH_PYTHON )
......
apps/impala/CMakeLists.txt → apps/anydsl/CMakeLists.txt
View file @ 01929289
......@@ -6,12 +6,13 @@ include_directories(${ANYDSL_RUNTIME_DIR}/src)
set(CLANG_FLAGS -O3 -march=native)
set(IMPALA_FLAGS --log-level info)
# examples based on the "mapping"
anydsl_runtime_wrap(IMPALA_OBJECT_FILE
CLANG_FLAGS ${CLANG_FLAGS}
IMPALA_FLAGS ${IMPALA_FLAGS}
FILES intrinsics/intrinsics_cpu.impala common.impala datastructures/linked_cell/cpu.impala utilities/linked_cell/cpu.impala algorithm/linked_cell/cpu.impala initialization/test.impala potential/lennard_jones.impala integration/verlet.impala boundary/rigid_walls.impala time_integration/cpu.impala run/cpu.impala)
FILES anydsl-md/impala/intrinsics/intrinsics_cpu.impala anydsl-md/impala/common.impala anydsl-md/impala/datastructures/linked_cell/cpu.impala anydsl-md/impala/utilities/linked_cell/cpu.impala anydsl-md/impala/algorithm/linked_cell/cpu.impala anydsl-md/impala/initialization/test.impala anydsl-md/impala/potential/lennard_jones.impala anydsl-md/impala/integration/verlet.impala anydsl-md/impala/boundary/rigid_walls.impala anydsl-md/impala/time_integration/cpu.impala anydsl-md/impala/run/cpu.impala)
waLBerla_add_executable ( NAME md_simulation
FILES md_simulation.cpp ${IMPALA_OBJECT_FILE} clib/fileIO.c clib/allocate.c
FILES md_simulation.cpp ${IMPALA_OBJECT_FILE} anydsl-md/impala/clib/fileIO.c anydsl-md/impala/clib/allocate.c
DEPENDS core blockforest pe domain_decomposition vtk)
apps/impala/algorithm/array/cpu.impala deleted 100644 → 0
View file @ 39cda575
fn compute_force(P: ParticleSystem, force: fn(Particle, Particle, Constants) -> ()) -> ()
{
let start = 0 as size_t;
let lut = P.lut();
for i in par_loop(start, P.np()) {
let p = P.getParticle(i);
p.setForces(get_null_vector());
}
/*
initialize(lut.data, lut.rows()*lut.cols()*sizeof[u8]() as size_t, 0i32);
for i in par_loop(start, P.np()){
for j in loop(start, P.np()) {
if(i != j)
{
let mut row = i;
let mut col = j;
if (i > j) {
row = j;
col = i;
}
if(row >= lut.rows()) {
let tmp = col;
col = row;
row = tmp;
col -= lut.rows();
row -= lut.rows();
}
let flag = cmpxchg(&mut bitcast[&mut[u8]](lut.data)(row*lut.cols() + col), 0u8, 1u8);
if (flag(1) == true)
{
force(P.getParticle(i), P.getParticle(j), P.constants());
}
}
}
}*/
for i in loop(start, P.np()) {
for j in loop(i+(1 as size_t), P.np()) {
let p1 = P.getParticle(i);
let p2 = P.getParticle(j);
force(p1, p2, P.constants());
}
}
}
fn update(P: ParticleSystem, dt: real, f: fn(Particle, real) -> ()) -> () {
for i in loop(0 as size_t, P.np()) {
f(P.getParticle(i), dt);
}
}
fn move_particles(P: ParticleSystem) -> () {
for i in loop(0 as size_t, P.np()) {
boundary(P.getParticle(i), P.l());
}
}
fn fprint_particle_system(fname: &[u8], step: size_t, P: ParticleSystem) -> ()
{
let start = 0 as size_t;
let fp = open_file(fname);
let N = P.np();
fprint_line(fp, "# vtk DataFile Version 2.0");
fprint_string(fp, "Step ");
fprint_size_t(fp, step);
fprint_line(fp, " data");
fprint_line(fp, "ASCII");
fprint_line(fp, "DATASET UNSTRUCTURED_GRID");
fprint_string(fp, "POINTS ");
fprint_size_t(fp, N);
fprint_line(fp, " double");
loop(start, N, |i| {
let p = P.getParticle(i);
p.getCoordinates().fprint(fp);
fprint_string(fp, "\n");
});
fprint_string(fp, "\n\n");
fprint_string(fp, "CELLS ");
fprint_size_t(fp, N);
fprint_string(fp, " ");
fprint_size_t(fp, (2 as size_t)*N);
fprint_string(fp, "\n");
loop(start, N, |i| {
fprint_string(fp, "1 ");
fprint_size_t(fp, i);
fprint_string(fp, "\n");
});
fprint_string(fp, "\n\n");
fprint_string(fp, "CELL_TYPES ");
fprint_size_t(fp, N);
fprint_string(fp, "\n");
loop(start, N, |i| {
fprint_string(fp, "1");
fprint_string(fp, "\n");
});
fprint_string(fp, "\n\n");
fprint_string(fp, "POINT_DATA ");
fprint_size_t(fp, N);
fprint_string(fp, "\n");
@loop(start, DIM, |d| {
fprint_string(fp, "SCALARS velocity_dim_");
fprint_size_t(fp, d);
fprint_line(fp, " double");
fprint_line(fp, "LOOKUP_TABLE default");
$loop(start, N, |i| {
let p = P.getParticle(i);
let v = p.getVelocities();
let x = v.x();
fprint_double(fp, x(d));
fprint_string(fp, "\n");
});
fprint_string(fp, "\n");
});
@loop(start, DIM, |d| {
fprint_string(fp, "SCALARS force_dim_");
fprint_size_t(fp, d);
fprint_line(fp, " double");
fprint_line(fp, "LOOKUP_TABLE default");
$loop(start, N, |i| {
let p = P.getParticle(i);
let v = p.getForces();
let x = v.x();
fprint_double(fp, x(d));
fprint_string(fp, "\n");
});
fprint_string(fp, "\n");
});
fprint_string(fp, "SCALARS mass");
fprint_line(fp, " double");
fprint_line(fp, "LOOKUP_TABLE default");
loop(start, N, |i| {
let p = P.getParticle(i);
let m = p.getMass();
fprint_double(fp, m);
fprint_string(fp, "\n");
});
fprint_string(fp, "\n");
close_file(fp);
}
fn print_statistics(P: ParticleSystem, t: real) -> ()
{
let sqr = |x : real| {x*x};
let mut e : real = 0.0;
loop(0 as size_t, P.np(), |i| {
let p = P.getParticle(i);
let v = p.getVelocities().reduce(sqr, |x,y|{x+y}, 0.0);
e += 0.5 * p.getMass() * v;
});
print_string("t: ");
print_double(t);
print_string("\tE: ");
print_double(e);
print_char('\n');
}
apps/impala/algorithm/linked_cell/cpu.impala deleted 100644 → 0
View file @ 39cda575
fn compute_force(P: ParticleSystem, force: fn(Particle, Particle, Constants) -> ()) -> ()
{
let z = 0 as size_t;
let ic_start = [z,z,z];
let ic_end = P.nc();
for ic, pl1 in @iterate_over_particle_system(ic_start, ic_end, P) {
let p1 = get_particle_from_node(*pl1);
p1.setForces(get_null_vector());
}
for ic, pl1 in @iterate_over_particle_system(ic_start, ic_end, P) {
let p1 = get_particle_from_node(*pl1);
let jc_start = [if(ic(0) > z) {ic(0) - 1 as size_t} else {ic(0)},
if(ic(1) > z) {ic(1) - 1 as size_t} else{ic(1)},
if(ic(2) > z) {ic(2) - 1 as size_t} else {ic(2)}];
let jc_end = [if(ic(0) + 1 as size_t < ic_end(0)) {ic(0) + 2 as size_t} else {ic_end(0)},
if(ic(1) + 1 as size_t < ic_end(1)) {ic(1) + 2 as size_t} else {ic_end(1)},
if(ic(2) + 1 as size_t < ic_end(2)) {ic(2) + 2 as size_t} else {ic_end(2)}];
for jc, pl2 in iterate_over_particle_system(jc_start, jc_end, P) {
if((pl1 as ptr_t < pl2 as ptr_t)) {
let p2 = get_particle_from_node(*pl2);
force(p1, p2, P.constants());
}
}
}
}
fn update(P: ParticleSystem, dt: real, f: fn(Particle, real) -> ()) -> ()
{
let z = 0 as size_t;
let ic_start = [z,z,z];
let ic_end = P.nc();
for ic, pl in @iterate_over_particle_system(ic_start, ic_end, P) {
let p = get_particle_from_node(*pl);
f(p, dt);
}
}
fn move_particles(P: ParticleSystem) -> () {
let z = 0 as size_t;
let ic_start = [z,z,z];
let ic_end = P.nc();
for ic, root in @iterate_over_particle_cells(ic_start, ic_end, P) {
let mut q : &mut &ParticleList = root;
let mut i : &ParticleList = *q;
while(i != 0 as &ParticleList) {
let p = get_particle_from_node(*i);
boundary(p, P.l());
let kc = compute_cell_position(p, P.nc(), P.l());
let mut moving_node : &mut ParticleList;
if(ic(0) != kc(0) || ic(1) != kc(1) || ic(2) != kc(2)) {
moving_node = remove(q);
insert(P.head(index(kc, P.nc())), moving_node);
}
else {
q = (&(*i).next) as &mut& ParticleList;
}
i = (*q);
}
}
}
fn fprint_particle_system(fname: &[u8], step: size_t, P: ParticleSystem) -> ()
{
let start = 0 as size_t;
let fp = open_file(fname);
let N = P.np();
fprint_line(fp, "# vtk DataFile Version 2.0");
fprint_string(fp, "Step ");
fprint_size_t(fp, step);
fprint_line(fp, " data");
fprint_line(fp, "ASCII");
fprint_line(fp, "DATASET UNSTRUCTURED_GRID");
fprint_string(fp, "POINTS ");
fprint_size_t(fp, N);
fprint_line(fp, " double");
let addresses = P.addresses();
for i in loop(start, N) {
let p = get_particle(addresses.get(i));
p.getCoordinates().fprint(fp);
fprint_string(fp, "\n");
}
fprint_string(fp, "\n\n");
fprint_string(fp, "CELLS ");
fprint_size_t(fp, N);
fprint_string(fp, " ");
fprint_size_t(fp, (2 as size_t)*N);
fprint_string(fp, "\n");
for i in loop(start, N){
fprint_string(fp, "1 ");
fprint_size_t(fp, i);
fprint_string(fp, "\n");
}
fprint_string(fp, "\n\n");
fprint_string(fp, "CELL_TYPES ");
fprint_size_t(fp, N);
fprint_string(fp, "\n");
for i in loop(start, N) {
fprint_string(fp, "1");
fprint_string(fp, "\n");
}
fprint_string(fp, "\n\n");
fprint_string(fp, "POINT_DATA ");
fprint_size_t(fp, N);
fprint_string(fp, "\n");
for d in loop(start, DIM) {
fprint_string(fp, "SCALARS velocity_dim_");
fprint_size_t(fp, d);
fprint_line(fp, " double");
fprint_line(fp, "LOOKUP_TABLE default");
for i in loop(start, N) {
let p = get_particle(addresses.get(i));
let v = p.getVelocities();
let x = v.x();
fprint_double(fp, x(d));
fprint_string(fp, "\n");
}
fprint_string(fp, "\n");
}
for d in loop(start, DIM) {
fprint_string(fp, "SCALARS force_dim_");
fprint_size_t(fp, d);
fprint_line(fp, " double");
fprint_line(fp, "LOOKUP_TABLE default");
for i in loop(start, N) {
let p = get_particle(addresses.get(i));
let v = p.getForces();
let x = v.x();
fprint_double(fp, x(d));
fprint_string(fp, "\n");
}
fprint_string(fp, "\n");
}
fprint_string(fp, "SCALARS mass");
fprint_line(fp, " double");
fprint_line(fp, "LOOKUP_TABLE default");
for i in loop(start, N) {
let p = get_particle(addresses.get(i));
let m = p.getMass();
fprint_double(fp, m);
fprint_string(fp, "\n");
}
fprint_string(fp, "\n");
close_file(fp);
}
/*
fn fprint_particle_system(fname: &[u8], step: size_t, P: ParticleSystem) -> ()
{
let start = 0 as size_t;
let fp = open_file(fname);
let N = P.np();
let z = 0 as size_t;
let ic_start = [z,z,z];
let ic_end = P.nc();
fprint_line(fp, "# vtk DataFile Version 2.0");
fprint_string(fp, "Step ");
fprint_size_t(fp, step);
fprint_line(fp, " data");
fprint_line(fp, "ASCII");
fprint_line(fp, "DATASET UNSTRUCTURED_GRID");
fprint_string(fp, "POINTS ");
fprint_size_t(fp, N);
fprint_line(fp, " double");
for ic, pl in iterate_over_particle_system(ic_start, ic_end, P) {
let p = get_particle_from_cell(*pl);
p.getCoordinates().fprint(fp);
fprint_string(fp, "\n");
}
fprint_string(fp, "\n\n");
fprint_string(fp, "CELLS ");
fprint_size_t(fp, N);
fprint_string(fp, " ");
fprint_size_t(fp, (2 as size_t)*N);
fprint_string(fp, "\n");
for i in loop(start, N){
fprint_string(fp, "1 ");
fprint_size_t(fp, i);
fprint_string(fp, "\n");
}
fprint_string(fp, "\n\n");
fprint_string(fp, "CELL_TYPES ");
fprint_size_t(fp, N);
fprint_string(fp, "\n");
for i in loop(start, N) {
fprint_string(fp, "1");
fprint_string(fp, "\n");
}
fprint_string(fp, "\n\n");
fprint_string(fp, "POINT_DATA ");
fprint_size_t(fp, N);
fprint_string(fp, "\n");
for d in loop(start, DIM) {
fprint_string(fp, "SCALARS velocity_dim_");
fprint_size_t(fp, d);
fprint_line(fp, " double");
fprint_line(fp, "LOOKUP_TABLE default");
for ic, pl in iterate_over_particle_system(ic_start, ic_end, P) {
let p = get_particle_from_cell(*pl);
let v = p.getVelocities();
let x = v.x();
fprint_double(fp, x(d));
fprint_string(fp, "\n");
}
fprint_string(fp, "\n");
}
fprint_string(fp, "SCALARS mass");
fprint_line(fp, " double");
fprint_line(fp, "LOOKUP_TABLE default");
for ic, pl in iterate_over_particle_system(ic_start, ic_end, P) {
let p = get_particle_from_cell(*pl);
let m = p.getMass();
fprint_double(fp, m);
fprint_string(fp, "\n");
}
fprint_string(fp, "\n");
close_file(fp);
}
*/
fn print_statistics(P: ParticleSystem, t: real) -> ()
{
let sqr = |x : real| {x*x};
let e : real = 0.0;
/*
loop(0 as size_t, P.np(), |i| {
let v = P.velocities().get(i).reduce(sqr, |x,y|{x+y}, 0.0);
e += 0.5 * P.masses().get(i) * v;
});*/
print_string("t: ");
print_double(t);
print_string("\tE: ");
print_double(e);
print_char('\n');
}
apps/impala/boundary/rigid_walls.impala deleted 100644 → 0
View file @ 39cda575
fn boundary(p: Particle, l: Vector) -> () {
let mut x = p.getCoordinates().x();
let mut change = false;
for d in @loop(0 as size_t, DIM) {
if(x(d) < 0.0) {
x(d) = 0.0+EPS;
change = true;
}
else if(x(d) > l.x()(d)) {
x(d) = l.x()(d)-EPS;
change = true;
}
}
if(change == true) {
p.setCoordinates(get_vector(x));
}
}
apps/impala/clean_build deleted 100755 → 0
View file @ 39cda575
#!/bin/sh
rm -rf Makefile CMakeFiles cmake_install.cmake CMakeCache.txt CTestTestfile.cmake *.o *.ll md
apps/impala/clib/allocate.c deleted 100644 → 0
View file @ 39cda575
#include <stdlib.h>
#include <string.h>
static size_t ALIGNMENT = 64ul;
unsigned char * allocate(size_t size) {
return (unsigned char *)aligned_alloc(ALIGNMENT, size);
}
unsigned char * allocate_and_initialize(size_t size, int val) {
void *ptr = aligned_alloc(ALIGNMENT, size);
memset(ptr, val, size);
return (unsigned char *)ptr;
}
unsigned char * reallocate(unsigned char *ptr, size_t size) {
return (unsigned char *)realloc((void *)ptr, size);
}
void initialize(unsigned char * ptr, size_t size, int val) {
memset((void *)ptr, val, size);
}
void deallocate(unsigned char *ptr) {
free(ptr);
}
apps/impala/clib/allocate.h deleted 100644 → 0
View file @ 39cda575
unsigned char * allocate(size_t size);
unsigned char * allocate_and_initialize(size_t size, int val);
unsigned char * reallocate(unsigned char *ptr, size_t size);
void initialize(unsigned char *ptr, size_t size, int val);
void deallocate(unsigned char *ptr);
apps/impala/clib/fileIO.c deleted 100644 → 0
View file @ 39cda575
#include <stdio.h>
#include <stdint.h>
void size_t_to_string(size_t i, unsigned char *buf, size_t bufsize) {
snprintf(buf, bufsize, "%lu", i);
}
void generate_filename(size_t i, unsigned char *buf, size_t bufsize) {
snprintf(buf, bufsize, "../impala_vtk/particles%lu.vtk", i);
}
uintptr_t open_file(unsigned char const *fname) {
FILE *fp = fopen(fname, "w");
if(fp == NULL) {
fprintf(stderr, "open_file: Could not open file %s", fname);
perror("");
return 0;
}
else {
return (uintptr_t)fp;
}
}
void close_file(uintptr_t fp) {
fclose((FILE *)fp);
}
void fprint_string(uintptr_t fp, unsigned char const *str) {
fputs(str, (FILE *)fp);
}
void fprint_line(uintptr_t fp, unsigned char const *str) {
fprintf((FILE *)fp, "%s\n", str);
}
void fprint_double(uintptr_t fp, double d) {
fprintf((FILE *)fp, "%f", d);
}
void fprint_float(uintptr_t fp, float f) {
fprintf((FILE *)fp, "%f", f);
}
void fprint_int(uintptr_t fp, int i) {
fprintf((FILE *)fp, "%d", i);
}
void fprint_size_t(uintptr_t fp, size_t i) {
fprintf((FILE *)fp, "%lu", i);
}
void fprint_char(uintptr_t fp, unsigned char c) {
fputc((int)c, (FILE *)fp);
}
apps/impala/clib/fileIO.h deleted 100644 → 0
View file @ 39cda575
#include <stdio.h>
#include <stdint.h>
void size_t_to_string(size_t i, unsigned char *buf, size_t bufsize);
void generate_filename(size_t i, unsigned char *buf, size_t bufsize);
uintptr_t open_file(unsigned char const *fname);
void close_file(uintptr_t fp);
void fprint_string(uintptr_t fp, unsigned char const *str);
void fprint_line(uintptr_t fp, unsigned char const *str);
void fprint_double(uintptr_t fp, double d);
void fprint_float(uintptr_t fp, float f);
void fprint_int(uintptr_t fp, int i);
void fprint_size_t(uintptr_t fp, size_t i);
void fprint_char(uintptr_t fp, unsigned char c);
apps/impala/common.impala deleted 100644 → 0
View file @ 39cda575
extern "C"
{
fn size_t_to_string(size_t, &mut[u8], size_t) -> ();
fn generate_filename(size_t , &mut[u8], size_t) -> ();
fn open_file(&[u8]) -> u64;
fn close_file(u64) -> ();
fn fprint_string(u64, &[u8]) -> ();
fn fprint_line(u64, &[u8]) -> ();
fn fprint_double(u64, f64) -> ();
fn fprint_float(u64, f32) -> ();
fn fprint_int(u64, i32) -> ();
fn fprint_size_t(u64, size_t) -> ();
fn fprint_char(u64, u8) -> ();
fn allocate(size_t) -> &u8;
fn allocate_and_initialize(size_t, i32) -> &u8;
fn initialize(&u8, size_t, i32) -> ();
fn deallocate(&u8) -> ();
}
type size_t = u64;