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Commit 09697f6f authored by Daniel Brown's avatar Daniel Brown
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Merge branch 'develop' of git.ligo.org:finesse/finesse into develop

parents 86c0c3c4 4c9bce39
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finesse.sh
View file @ 09697f6f
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lib/SuperLU_MT_2.1/EXAMPLE/pdlinsolx.c.bak deleted 100755 → 0
View file @ 86c0c3c4
/*
* -- SuperLU MT routine (version 2.0) --
* Lawrence Berkeley National Lab, Univ. of California Berkeley,
* and Xerox Palo Alto Research Center.
* September 10, 2007
*
*/
#include "pdsp_defs.h"
main(int argc, char *argv[])
{
SuperMatrix A, L, U;
SuperMatrix B, X;
NCformat *Astore;
SCPformat *Lstore;
NCPformat *Ustore;
int nprocs;
fact_t fact;
trans_t trans;
yes_no_t refact, usepr;
equed_t equed;
double *a;
int *asub, *xa;
int *perm_c; /* column permutation vector */
int *perm_r; /* row permutations from partial pivoting */
void *work;
superlumt_options_t superlumt_options;
int info, lwork, nrhs, ldx, panel_size, relax;
int m, n, nnz, permc_spec;
int i, firstfact;
double *rhsb, *rhsx, *xact;
double *R, *C;
double *ferr, *berr;
double u, drop_tol, rpg, rcond;
superlu_memusage_t superlu_memusage;
void parse_command_line();
/* Default parameters to control factorization. */
nprocs = 1;
fact = EQUILIBRATE;
trans = NOTRANS;
equed = NOEQUIL;
refact= NO;
panel_size = sp_ienv(1);
relax = sp_ienv(2);
u = 1.0;
usepr = NO;
drop_tol = 0.0;
lwork = 0;
nrhs = 1;
/* Command line options to modify default behavior. */
parse_command_line(argc, argv, &nprocs, &lwork, &panel_size, &relax,
&u, &fact, &trans, &refact, &equed);
if ( lwork > 0 ) {
work = SUPERLU_MALLOC(lwork);
printf("Use work space of size LWORK = %d bytes\n", lwork);
if ( !work ) {
SUPERLU_ABORT("DLINSOLX: cannot allocate work[]");
}
}
#if ( PRNTlevel==1 )
cpp_defs();
#endif
#define HB
#if defined( DEN )
m = n;
nnz = n * n;
dband(n, n, nnz, &a, &asub, &xa);
#elif defined( BAND )
m = n;
nnz = (2*b+1) * n;
dband(n, b, nnz, &a, &asub, &xa);
#elif defined( BD )
nb = 5;
bs = 200;
m = n = bs * nb;
nnz = bs * bs * nb;
dblockdiag(nb, bs, nnz, &a, &asub, &xa);
#elif defined( HB )
dreadhb(&m, &n, &nnz, &a, &asub, &xa);
#else
dreadmt(&m, &n, &nnz, &a, &asub, &xa);
#endif
firstfact = (fact == FACTORED || refact == YES);
dCreate_CompCol_Matrix(&A, m, n, nnz, a, asub, xa, SLU_NC, SLU_D, SLU_GE);
Astore = A.Store;
printf("Dimension %dx%d; # nonzeros %d\n", A.nrow, A.ncol, Astore->nnz);
if (!(rhsb = doubleMalloc(m * nrhs))) SUPERLU_ABORT("Malloc fails for rhsb[].");
if (!(rhsx = doubleMalloc(m * nrhs))) SUPERLU_ABORT("Malloc fails for rhsx[].");
dCreate_Dense_Matrix(&B, m, nrhs, rhsb, m, SLU_DN, SLU_D, SLU_GE);
dCreate_Dense_Matrix(&X, m, nrhs, rhsx, m, SLU_DN, SLU_D, SLU_GE);
xact = doubleMalloc(n * nrhs);
ldx = n;
dGenXtrue(n, nrhs, xact, ldx);
dFillRHS(trans, nrhs, xact, ldx, &A, &B);
if (!(perm_r = intMalloc(m))) SUPERLU_ABORT("Malloc fails for perm_r[].");
if (!(perm_c = intMalloc(n))) SUPERLU_ABORT("Malloc fails for perm_c[].");
if (!(R = (double *) SUPERLU_MALLOC(A.nrow * sizeof(double))))
SUPERLU_ABORT("SUPERLU_MALLOC fails for R[].");
if ( !(C = (double *) SUPERLU_MALLOC(A.ncol * sizeof(double))) )
SUPERLU_ABORT("SUPERLU_MALLOC fails for C[].");
if ( !(ferr = (double *) SUPERLU_MALLOC(nrhs * sizeof(double))) )
SUPERLU_ABORT("SUPERLU_MALLOC fails for ferr[].");
if ( !(berr = (double *) SUPERLU_MALLOC(nrhs * sizeof(double))) )
SUPERLU_ABORT("SUPERLU_MALLOC fails for berr[].");
/*
* Get column permutation vector perm_c[], according to permc_spec:
* permc_spec = 0: natural ordering
* permc_spec = 1: minimum degree ordering on structure of A'*A
* permc_spec = 2: minimum degree ordering on structure of A'+A
* permc_spec = 3: approximate minimum degree for unsymmetric matrices
*/
permc_spec = 1;
get_perm_c(permc_spec, &A, perm_c);
superlumt_options.nprocs = nprocs;
superlumt_options.fact = fact;
superlumt_options.trans = trans;
superlumt_options.refact = refact;
superlumt_options.panel_size = panel_size;
superlumt_options.relax = relax;
superlumt_options.diag_pivot_thresh = u;
superlumt_options.usepr = usepr;
superlumt_options.drop_tol = drop_tol;
superlumt_options.SymmetricMode = NO;
superlumt_options.PrintStat = NO;
superlumt_options.perm_c = perm_c;
superlumt_options.perm_r = perm_r;
superlumt_options.work = work;
superlumt_options.lwork = lwork;
/*
* Solve the system and compute the condition number
* and error bounds using pdgssvx.
*/
pdgssvx(nprocs, &superlumt_options, &A, perm_c, perm_r,
&equed, R, C, &L, &U, &B, &X, &rpg, &rcond,
ferr, berr, &superlu_memusage, &info);
printf("pdgssvx(): info %d\n", info);
if ( info == 0 || info == n+1 ) {
printf("Recip. pivot growth = %e\n", rpg);
printf("Recip. condition number = %e\n", rcond);
printf("%8s%16s%16s\n", "rhs", "FERR", "BERR");
for (i = 0; i < nrhs; ++i) {
printf("%8d%16e%16e\n", i+1, ferr[i], berr[i]);
}
Lstore = (SCPformat *) L.Store;
Ustore = (NCPformat *) U.Store;
printf("No of nonzeros in factor L = %d\n", Lstore->nnz);
printf("No of nonzeros in factor U = %d\n", Ustore->nnz);
printf("No of nonzeros in L+U = %d\n", Lstore->nnz + Ustore->nnz - n);
printf("L\\U MB %.3f\ttotal MB needed %.3f\texpansions %d\n",
superlu_memusage.for_lu/1e6, superlu_memusage.total_needed/1e6,
superlu_memusage.expansions);
fflush(stdout);
} else if ( info > 0 && lwork == -1 ) {
printf("** Estimated memory: %d bytes\n", info - n);
}
SUPERLU_FREE (rhsb);
SUPERLU_FREE (rhsx);
SUPERLU_FREE (xact);
SUPERLU_FREE (perm_r);
SUPERLU_FREE (perm_c);
SUPERLU_FREE (R);
SUPERLU_FREE (C);
SUPERLU_FREE (ferr);
SUPERLU_FREE (berr);
Destroy_CompCol_Matrix(&A);
Destroy_SuperMatrix_Store(&B);
Destroy_SuperMatrix_Store(&X);
if ( lwork >= 0 ) {
Destroy_SuperNode_SCP(&L);
Destroy_CompCol_NCP(&U);
}
}
/*
* Parse command line options.
*/
void
parse_command_line(int argc, char *argv[], int *nprocs, int *lwork,
int *w, int *relax, double *u, fact_t *fact,
trans_t *trans, yes_no_t *refact, equed_t *equed)
{
int c;
extern char *optarg;
while ( (c = getopt(argc, argv, "hp:l:w:x:u:f:t:r:e:")) != EOF ) {
switch (c) {
case 'h':
printf("Options:\n");
printf("\t-p <int> - number of processes\n");
printf("\t-l <int> - length of work[*] array\n");
printf("\t-w <int> - panel size\n");
printf("\t-x <int> - maximum size of relaxed supernodes\n");
printf("\t-u <int> - pivoting threshold\n");
printf("\t-f <FACTORED/DOFACT/EQUILIBRATE> - factor control\n");
printf("\t-t <NOTRANS/TRANS/CONJ> - transpose or not\n");
printf("\t-r <NO/YES> - refactor or not\n");
printf("\t-e <NOEQUIL/ROW/COL/BOTH> - equilibrate or not\n");
exit(1);
break;
case 'p': *nprocs = atoi(optarg);
break;
case 'l': *lwork = atoi(optarg);
break;
case 'w': *w = atoi(optarg);
break;
case 'x': *relax = atoi(optarg);
break;
case 'u': *u = atof(optarg);
break;
case 'f': *fact = (fact_t) atoi(optarg);
break;
case 't': *trans = (trans_t) atoi(optarg);
break;
case 'r': *refact = (yes_no_t) atoi(optarg);
break;
case 'e': *equed = (equed_t) atoi(optarg);
break;
default: fprintf(stderr, "Invalid command line option.\n");
break;
}
}
}
lib/SuperLU_MT_2.1/EXAMPLE/pdspmd.c.bak deleted 100755 → 0
View file @ 86c0c3c4
This diff is collapsed.
lib/SuperLU_MT_2.1/SRC/sp_coletree.c.orig deleted 100755 → 0
View file @ 86c0c3c4
/* Elimination tree computation and layout routines */
#include <stdio.h>
#ifndef __STDC__
#include <malloc.h>
#endif
#include <stdlib.h>
#include "util.h"
/*
* Implementation of disjoint set union routines.
* Elements are integers in 0..n-1, and the
* names of the sets themselves are of type int.
*
* Calls are:
* initialize_disjoint_sets (n) initial call.
* s = make_set (i) returns a set containing only i.
* s = link (t, u) returns s = t union u, destroying t and u.
* s = find (i) return name of set containing i.
* finalize_disjoint_sets final call.
*
* This implementation uses path compression but not weighted union.
* See Tarjan's book for details.
* John Gilbert, CMI, 1987.
*/
static int *pp; /* parent array for sets */
static
int *mxCallocInt(int n)
{
register int i;
int *buf;
buf = (int *) SUPERLU_MALLOC( n * sizeof(int) );
if ( !buf ) {
printf("SUPERLU_MALLOC failed for buf in mxCallocInt()");
exit (1);
}
for (i = 0; i < n; i++) buf[i] = 0;
return (buf);
}
static
void initialize_disjoint_sets (
int n
)
{
pp = mxCallocInt(n);
}
static
int make_set (
int i
)
{
pp[i] = i;
return i;
}
static
int link (
int s,
int t
)
{
pp[s] = t;
return t;
}
/* PATH HALVING */
static
int find (int i)
{
register int p, gp;
p = pp[i];
gp = pp[p];
while (gp != p) {
pp[i] = gp;
i = gp;
p = pp[i];
gp = pp[p];
}
return (p);
}
#if 0
static
int find (
int i
)
{
if (pp[i] != i)
pp[i] = find (pp[i]);
return pp[i];
}
#endif
static
void finalize_disjoint_sets (
void
)
{
SUPERLU_FREE(pp);
}
/*
* Find the elimination tree for A'*A.
* This uses something similar to Liu's algorithm.
* It runs in time O(nz(A)*log n) and does not form A'*A.
*
* Input:
* Sparse matrix A. Numeric values are ignored, so any
* explicit zeros are treated as nonzero.
* Output:
* Integer array of parents representing the elimination
* tree of the symbolic product A'*A. Each vertex is a
* column of A, and nc means a root of the elimination forest.
*
* John R. Gilbert, Xerox, 10 Dec 1990
* Based on code by JRG dated 1987, 1988, and 1990.
*/
/*
* Nonsymmetric elimination tree
*/
int
sp_coletree(
int *acolst, int *acolend, /* column start and end past 1 */
int *arow, /* row indices of A */
int nr, int nc, /* dimension of A */
int *parent /* parent in elim tree */
)
{
int *root; /* root of subtee of etree */
int *firstcol; /* first nonzero col in each row*/
int rset, cset;
int row, col;
int rroot;
int p;
root = mxCallocInt (nc);
initialize_disjoint_sets (nc);
/* Compute firstcol[row] = first nonzero column in row */
firstcol = mxCallocInt (nr);
for (row = 0; row < nr; firstcol[row++] = nc);
for (col = 0; col < nc; col++)
for (p = acolst[col]; p < acolend[col]; p++) {
row = arow[p];
firstcol[row] = MIN(firstcol[row], col);
}
/* Compute etree by Liu's algorithm for symmetric matrices,
except use (firstcol[r],c) in place of an edge (r,c) of A.
Thus each row clique in A'*A is replaced by a star
centered at its first vertex, which has the same fill. */
for (col = 0; col < nc; col++) {
cset = make_set (col);
root[cset] = col;
parent[col] = nc; /* Matlab */
for (p = acolst[col]; p < acolend[col]; p++) {
row = firstcol[arow[p]];
if (row >= col) continue;
rset = find (row);
rroot = root[rset];
if (rroot != col) {
parent[rroot] = col;
cset = link (cset, rset);
root[cset] = col;
}
}
}
SUPERLU_FREE (root);
SUPERLU_FREE (firstcol);
finalize_disjoint_sets ();
return 0;
}
/*
* q = TreePostorder (n, p);
*
* Postorder a tree.
* Input:
* p is a vector of parent pointers for a forest whose
* vertices are the integers 0 to n-1; p[root]==n.
* Output:
* q is a vector indexed by 0..n-1 such that q[i] is the
* i-th vertex in a postorder numbering of the tree.
*
* ( 2/7/95 modified by X.Li:
* q is a vector indexed by 0:n-1 such that vertex i is the
* q[i]-th vertex in a postorder numbering of the tree.
* That is, this is the inverse of the previous q. )
*
* In the child structure, lower-numbered children are represented
* first, so that a tree which is already numbered in postorder
* will not have its order changed.
*
* Written by John Gilbert, Xerox, 10 Dec 1990.
* Based on code written by John Gilbert at CMI in 1987.
*/
static int *first_kid, *next_kid; /* Linked list of children. */
static int *post, postnum;
static
/*
* Depth-first search from vertex v.
*/
void etdfs (
int v
)
{
int w;
for (w = first_kid[v]; w != -1; w = next_kid[w]) {
etdfs (w);
}
/* post[postnum++] = v; in Matlab */
post[v] = postnum++; /* Modified by X.Li on 2/14/95 */
}
/*
* Post order a tree
*/
int *TreePostorder(
int n,
int *parent
)
{
int v, dad;
/* Allocate storage for working arrays and results */
first_kid = mxCallocInt (n+1);
next_kid = mxCallocInt (n+1);
post = mxCallocInt (n+1);
/* Set up structure describing children */
for (v = 0; v <= n; first_kid[v++] = -1);
for (v = n-1; v >= 0; v--) {
dad = parent[v];
next_kid[v] = first_kid[dad];
first_kid[dad] = v;
}
/* Depth-first search from dummy root vertex #n */
postnum = 0;
etdfs (n);
SUPERLU_FREE (first_kid);
SUPERLU_FREE (next_kid);
return post;
}
src/Makefile
View file @ 09697f6f
......@@ -7,6 +7,11 @@
#
SHELL = bash
# Hard coded version string in case it cannot be derived using git, this needs to be
# updated manually upon every release!
VERSION = 2.2
SHA = 2.2-33-g9b50c06
.PHONY: clean tags cover_report test_clean api_clean
ifeq "$(ARCH)" "linux"
......@@ -207,10 +212,22 @@ PREREQS += $(OBJECTS)
# determine short SHA of git commit
#GIT_SHA_CMD = $(GIT) rev-parse --verify HEAD --short
GIT_SHA_CMD = $(GIT) describe --long
GIT_SHA = $(shell $(GIT_SHA_CMD))
GIT_VER_CMD = $(GIT) describe --abbrev=0
GIT_VERSION = $(shell $(GIT_VER_CMD))
#GIT_SHA_CMD = $(GIT) describe --long | awk '{ sub("-",".",$0)}1'
GIT_SHA_CMD = $(GIT) describe --long 2>/dev/null
GIT_SHA = $(shell $(GIT_SHA_CMD))
#GIT_VER_CMD = $(GIT) describe --long | awk '{ sub("-",".",$0)}1' | cut -d- -f1
GIT_VER_CMD = $(GIT) describe --abbrev=0 2>/dev/null
GIT_VERSION = $(shell $(GIT_VER_CMD))
ifeq ($(strip $(GIT_VERSION)),)
GIT_VERSION=$(VERSION)
endif
ifeq ($(strip $(GIT_SHA)),)
GIT_SHA=$(SHA)
endif
# Rewriting the SHA to replace the first - with a . for A.B.C like version string
VERSION_LIST = $(word $2, $(subst -, ,$(GIT_SHA)))
GIT_SHA_REWRITE=$(call VERSION_LIST,$*,1).$(call VERSION_LIST,$*,2)-$(call VERSION_LIST,$*,3)
# the default target
default: kat
......@@ -219,7 +236,7 @@ FAST_CFLAGS=$(BASE_CFLAGS)
# compile objects from c code
%.o: %.c
$(CC) ${GSL_CFLAGS} $(BASE_CFLAGS) -c $(INCLUDES) $<
# make all
all: kat win test versionnumber
......@@ -331,7 +348,7 @@ versionnumber: config $(PREREQS)
# generate the config file
config:
# output the value of GIT_SHA to kat_config.h
@echo "#define GIT_REVISION \"$(GIT_SHA)\"" > $(KAT_CONFIG_H)
@echo "#define GIT_REVISION \"$(GIT_SHA_REWRITE)\"" > $(KAT_CONFIG_H)
@echo "#define VERSION \"$(GIT_VERSION)\"" >> $(KAT_CONFIG_H)
@echo \#define MYTIME \"`date +%d.%m.%Y`\" >> $(KAT_CONFIG_H)
......
src/fmemopen.c
View file @ 09697f6f
......@@ -108,6 +108,7 @@ static int closefn(void *handler) {
}
FILE *fmemopen(void *buf, size_t size, const char *mode) {
// This data is released on fclose.
fmem_t* mem = (fmem_t *) malloc(sizeof(fmem_t));
(void)mode; // silence compiler warning;
......
src/kat.h
View file @ 09697f6f
......@@ -52,6 +52,9 @@
#include<gsl/gsl_multimin.h>
// for suppressing 'unused parameter warings explicitly
#define UNUSED(x) (void)(x)
#if OS == MACOS
#include <stdint.h>
typedef struct timespec_kat
......@@ -2307,7 +2310,7 @@ typedef struct minimizerN {
double abserr;
int max_iter;
gsl_multimin_fminimizer_type *T;
const gsl_multimin_fminimizer_type *T;
gsl_multimin_fminimizer *s;
gsl_vector *ss, *x;
gsl_multimin_function minex_func;
......
src/kat_aa.c
View file @ 09697f6f
......@@ -321,7 +321,7 @@ void knm_matrix_mult(zmatrix A, zmatrix B, zmatrix C) {
else
tmp = C;
size_t n, m, l;
long n, m, l;
for (n = 0; n < mem.num_fields; n++) {
for (m = 0; m < mem.num_fields; m++) {
......@@ -3038,8 +3038,8 @@ int set_k_modulator(int modulator_index) {
double gouy_1 = gouy(q1);
double gouy_2 = gouy(q2);
double w1 = w_size(q1, nr1);
double w2 = w_size(q2, nr2);
//double w1 = w_size(q1, nr1);
//double w2 = w_size(q2, nr2);
complex_t factor12 = complex_1;
complex_t factor21 = complex_1;
......
src/kat_aux.c
View file @ 09697f6f
......@@ -2387,7 +2387,7 @@ void set_all_tems(void) {
*
* Returns 0 if ground/dump node
*/
int get_node_q_to(node_t *node, int component_idx, complex_t *qx, complex_t *qy){
//int get_node_q_to(node_t *node, int component_idx, complex_t *qx, complex_t *qy){
// if (NOT node->gnd_node) {
// // If q was traced away from a component, a node it will have the component index
// // set to it, so here we reverse it
......@@ -2401,7 +2401,7 @@ int get_node_q_to(node_t *node, int component_idx, complex_t *qx, complex_t *qy)
// } else {
// return 0;
// }
}
//}
/***
* Gets the complex beam parameter at a node going from a component.
......@@ -2413,7 +2413,7 @@ int get_node_q_to(node_t *node, int component_idx, complex_t *qx, complex_t *qy)
*
* Returns 0 if ground/dump node
*/
int get_node_q_from(node_t *node, int component_idx, complex_t *qx, complex_t *qy){
//int get_node_q_from(node_t *node, int component_idx, complex_t *qx, complex_t *qy){
// if (NOT node->gnd_node) {
// // If q was traced "from" a node it will have the component index
// // set to it
......@@ -2427,7 +2427,7 @@ int get_node_q_from(node_t *node, int component_idx, complex_t *qx, complex_t *q
// } else {
// return 0;
// }
}
//}
//! Returns factorial for n<=100
......@@ -2890,11 +2890,17 @@ const char *get_comp_name2(int type, int list_index){
case SAGNAC: return inter.sagnac_list[list_index].name;
case MODULATOR: return inter.modulator_list[list_index].name;
case DIODE: return inter.diode_list[list_index].name;
case SPACE: return inter.space_list[list_index].name;
case SPACE:
case SPACECONNECTION:
return inter.space_list[list_index].name;
case QFEEDBACK: return inter.slink_list[list_index].name;
case LIGHT_INPUT: return inter.light_in_list[list_index].name;
case GRATING: return inter.grating_list[list_index].name;
case SQUEEZER: return inter.squeezer_list[list_index].name;
case DBS: return inter.dbs_list[list_index].name;
default:
bug_error("type not handled");
}
return NULL;
}
......@@ -2910,6 +2916,10 @@ const char *get_comp_name(int type, void *comp){
case SPACECONNECTION:
return ((space_t*)comp)->name;
case QFEEDBACK: return ((slink_t*)comp)->name;
case LIGHT_INPUT: return ((light_in_t*)comp)->name;
case GRATING: return ((grating_t*)comp)->name;
case SQUEEZER: return ((squeezer_t*)comp)->name;
case DBS: return ((dbs_t*)comp)->name;
default:
bug_error("type not handled %i", type);
}
......@@ -4946,7 +4956,7 @@ int get_function_idx(char* name){
int strhash(char *key) {
size_t len = strlen(key);
int hash, i;
for(hash = i = 0; i < len; ++i)
for(hash = i = 0; i < (int)len; ++i)
{
hash += key[i];
hash += (hash << 10);
......
src/kat_aux.h
View file @ 09697f6f
......@@ -146,8 +146,11 @@ int get_function_idx(char* name);
int strhash(char *key);
int get_node_q_from(node_t *node, int component_idx, complex_t *qx, complex_t *qy);
int get_node_q_to(node_t *node, int component_idx, complex_t *qx, complex_t *qy);
// Andreas, removed at the function bodies have been
// commneted out for a while 08.11.2019
//int get_node_q_from(node_t *node, int component_idx, complex_t *qx, complex_t *qy);
//int get_node_q_to(node_t *node, int component_idx, complex_t *qx, complex_t *qy);