octave new pisi release
This commit is contained in:
blue-devil
@@ -0,0 +1,37 @@
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#!/usr/bin/python
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# -*- coding: utf-8 -*-
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#
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# Licensed under the GNU General Public License, version 3.
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# See the file http://www.gnu.org/licenses/gpl.txt
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from pisi.actionsapi import get
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from pisi.actionsapi import autotools
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from pisi.actionsapi import pisitools
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from pisi.actionsapi import shelltools
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def setup():
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autotools.autoreconf("-vif")
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# suppress compiler warnings
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pisitools.cflags.add("-Wno-cpp")
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pisitools.cxxflags.add("-Wno-deprecated-copy -Wno-unused-parameter -Wno-deprecated-declarations")
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autotools.configure("--enable-shared --disable-static \
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--with-quantum-depth=16 \
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--with-sundials_ida='-lsundials_ida -lsundials_sunlinsolklu'")
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# don't fix rpath
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#pisitools.dosed("libtool", "^(hardcode_libdir_flag_spec=).*", '\\1""')
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#pisitools.dosed("libtool", "^(runpath_var=)LD_RUN_PATH", "\\1DIE_RPATH_DIE")
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# fix unused direct dependency analysis
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pisitools.dosed("libtool", " -shared ", " -Wl,-O1,--as-needed -shared ")
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def build():
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autotools.make()
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def install():
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autotools.rawInstall("DESTDIR=%s" % get.installDIR())
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pisitools.dodoc("COPYING", "README*")
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#some packages search libraries direst under /usr/lib
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pisitools.dosym("/usr/lib/octave/5.2.0/liboctave.so.7.0.1", "/usr/lib/liboctave.so")
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pisitools.dosym("/usr/lib/octave/5.2.0/liboctinterp.so.7.0.1", "/usr/lib/liboctinterp.so")
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pisitools.dosym("/usr/lib/octave/5.2.0/liboctinterp.so.7.0.1", "/usr/lib/liboctinterp.so.7")
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@@ -0,0 +1,599 @@
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# HG changeset patch
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# User Bill Greene <w.h.greene@gmail.com>
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# Date 1550229868 -3600
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# Fri Feb 15 12:24:28 2019 +0100
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# Node ID 4bf27c090f5695bcf545fc4af15e2a61a3941d46
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# Parent f034b29320ad5034ad5c66480f64411e9d773440
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Update DAE/IDE solvers to work with SUNDIALS 3 (bug #52475).
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* libinterp/dldfcn/__ode15__.cc : use SUNDIALS API version 3.x
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diff --git a/libinterp/dldfcn/__ode15__.cc b/libinterp/dldfcn/__ode15__.cc
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--- a/libinterp/dldfcn/__ode15__.cc
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+++ b/libinterp/dldfcn/__ode15__.cc
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@@ -1,6 +1,7 @@
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/*
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Copyright (C) 2016-2019 Francesco Faccio <francesco.faccio@mail.polimi.it>
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+Copyright (C) 2019 William Greene <w.h.greene@gmail.com>
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This file is part of Octave.
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@@ -112,7 +113,8 @@
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havejacsparse (false), mem (nullptr), num (), ida_fun (nullptr),
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ida_jac (nullptr), dfdy (nullptr), dfdyp (nullptr), spdfdy (nullptr),
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spdfdyp (nullptr), fun (nullptr), jacfun (nullptr), jacspfun (nullptr),
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- jacdcell (nullptr), jacspcell (nullptr)
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+ jacdcell (nullptr), jacspcell (nullptr),
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+ sunJacMatrix (nullptr), sunLinearSolver (nullptr)
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{ }
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@@ -122,11 +124,17 @@
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havejacsparse (false), mem (nullptr), num (), ida_fun (ida_fcn),
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ida_jac (nullptr), dfdy (nullptr), dfdyp (nullptr), spdfdy (nullptr),
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spdfdyp (nullptr), fun (daefun), jacfun (nullptr), jacspfun (nullptr),
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- jacdcell (nullptr), jacspcell (nullptr)
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+ jacdcell (nullptr), jacspcell (nullptr),
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+ sunJacMatrix (nullptr), sunLinearSolver (nullptr)
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{ }
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- ~IDA (void) { IDAFree (&mem); }
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+ ~IDA (void)
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+ {
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+ IDAFree (&mem);
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+ SUNLinSolFree(sunLinearSolver);
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+ SUNMatDestroy(sunJacMatrix);
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+ }
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IDA&
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set_jacobian (octave_function *jac, DAEJacFuncDense j)
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@@ -184,7 +192,7 @@
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static N_Vector ColToNVec (const ColumnVector& data, long int n);
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void
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- set_up (void);
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+ set_up (const ColumnVector& y);
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void
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set_tolerance (ColumnVector& abstol, realtype reltol);
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@@ -199,25 +207,24 @@
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void
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resfun_impl (realtype t, N_Vector& yy,
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N_Vector& yyp, N_Vector& rr);
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-
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static int
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- jacdense (long int Neq, realtype t, realtype cj, N_Vector yy,
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- N_Vector yyp, N_Vector, DlsMat JJ, void *user_data,
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+ jacdense (realtype t, realtype cj, N_Vector yy,
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+ N_Vector yyp, N_Vector, SUNMatrix JJ, void *user_data,
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N_Vector, N_Vector, N_Vector)
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{
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IDA *self = static_cast <IDA *> (user_data);
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- self->jacdense_impl (Neq, t, cj, yy, yyp, JJ);
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+ self->jacdense_impl (t, cj, yy, yyp, JJ);
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return 0;
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}
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void
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- jacdense_impl (long int Neq, realtype t, realtype cj,
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- N_Vector& yy, N_Vector& yyp, DlsMat& JJ);
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+ jacdense_impl (realtype t, realtype cj,
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+ N_Vector& yy, N_Vector& yyp, SUNMatrix& JJ);
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# if defined (HAVE_SUNDIALS_IDAKLU)
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static int
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jacsparse (realtype t, realtype cj, N_Vector yy, N_Vector yyp,
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- N_Vector, SlsMat Jac, void *user_data, N_Vector,
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+ N_Vector, SUNMatrix Jac, void *user_data, N_Vector,
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N_Vector, N_Vector)
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{
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IDA *self = static_cast <IDA *> (user_data);
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@@ -227,7 +234,7 @@
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void
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jacsparse_impl (realtype t, realtype cj, N_Vector& yy,
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- N_Vector& yyp, SlsMat& Jac);
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+ N_Vector& yyp, SUNMatrix& Jac);
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#endif
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void set_maxstep (realtype maxstep);
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@@ -291,6 +298,8 @@
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DAEJacFuncSparse jacspfun;
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DAEJacCellDense jacdcell;
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DAEJacCellSparse jacspcell;
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+ SUNMatrix sunJacMatrix;
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+ SUNLinearSolver sunLinearSolver;
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};
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int
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@@ -323,36 +332,61 @@
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}
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void
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- IDA::set_up (void)
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+ IDA::set_up (const ColumnVector& y)
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{
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+ N_Vector yy = ColToNVec(y, num);
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+
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if (havejacsparse)
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{
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# if defined (HAVE_SUNDIALS_IDAKLU)
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- if (IDAKLU (mem, num, num*num, CSC_MAT) != 0)
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- error ("IDAKLU solver not initialized");
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+
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+ sunJacMatrix = SUNSparseMatrix (num, num, num*num, CSC_MAT);
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+ if (! sunJacMatrix)
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+ error ("Unable to create sparse Jacobian for Sundials");
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+
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+ sunLinearSolver = SUNKLU (yy, sunJacMatrix);
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+ if (! sunLinearSolver)
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+ error ("Unable to create KLU sparse solver");
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- IDASlsSetSparseJacFn (mem, IDA::jacsparse);
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+ if (IDADlsSetLinearSolver (mem, sunLinearSolver, sunJacMatrix))
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+ error ("Unable to set sparse linear solver");
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+
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+ IDADlsSetJacFn (mem, IDA::jacsparse);
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+
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# else
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- error ("IDAKLU is not available in this version of Octave");
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+ error ("SUNDIALS SUNLINSOL KLU is not available in this version of Octave");
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# endif
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+
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}
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else
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{
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- if (IDADense (mem, num) != 0)
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- error ("IDADense solver not initialized");
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+
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+ sunJacMatrix = SUNDenseMatrix (num, num);
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+ if (! sunJacMatrix)
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+ error ("Unable to create dense Jacobian for Sundials");
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- if (havejac && IDADlsSetDenseJacFn (mem, IDA::jacdense) != 0)
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- error ("Dense Jacobian not set");
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+ sunLinearSolver = SUNDenseLinearSolver (yy, sunJacMatrix);
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+ if (! sunLinearSolver)
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+ error ("Unable to create dense linear solver");
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+
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+ if (IDADlsSetLinearSolver (mem, sunLinearSolver, sunJacMatrix))
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+ error ("Unable to set dense linear solver");
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+
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+ if (havejac && IDADlsSetJacFn (mem, IDA::jacdense) != 0)
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+ error ("Unable to set dense Jacobian function");
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+
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}
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}
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void
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- IDA::jacdense_impl (long int Neq, realtype t, realtype cj,
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- N_Vector& yy, N_Vector& yyp, DlsMat& JJ)
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+ IDA::jacdense_impl (realtype t, realtype cj,
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+ N_Vector& yy, N_Vector& yyp, SUNMatrix& JJ)
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{
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BEGIN_INTERRUPT_WITH_EXCEPTIONS;
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+ long int Neq = NV_LENGTH_S(yy);
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+
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ColumnVector y = NVecToCol (yy, Neq);
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ColumnVector yp = NVecToCol (yyp, Neq);
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@@ -366,7 +400,7 @@
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std::copy (jac.fortran_vec (),
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jac.fortran_vec () + jac.numel (),
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- JJ->data);
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+ SUNDenseMatrix_Data(JJ));
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END_INTERRUPT_WITH_EXCEPTIONS;
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}
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@@ -374,7 +408,7 @@
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# if defined (HAVE_SUNDIALS_IDAKLU)
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void
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IDA::jacsparse_impl (realtype t, realtype cj, N_Vector& yy, N_Vector& yyp,
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- SlsMat& Jac)
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+ SUNMatrix& Jac)
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{
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BEGIN_INTERRUPT_WITH_EXCEPTIONS;
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@@ -390,17 +424,18 @@
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else
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jac = (*jacspcell) (spdfdy, spdfdyp, cj);
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- SparseSetMatToZero (Jac);
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- int *colptrs = *(Jac->colptrs);
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- int *rowvals = *(Jac->rowvals);
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+ SUNMatZero_Sparse (Jac);
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+ octave_idx_type *colptrs = SUNSparseMatrix_IndexPointers (Jac);
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+ octave_idx_type *rowvals = SUNSparseMatrix_IndexValues (Jac);
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for (int i = 0; i < num + 1; i++)
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colptrs[i] = jac.cidx(i);
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+ double *d = SUNSparseMatrix_Data (Jac);
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for (int i = 0; i < jac.nnz (); i++)
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{
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rowvals[i] = jac.ridx(i);
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- Jac->data[i] = jac.data(i);
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+ d[i] = jac.data(i);
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}
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END_INTERRUPT_WITH_EXCEPTIONS;
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@@ -567,7 +602,7 @@
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//main loop
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while (((posdirection == 1 && tsol < tend)
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- || (posdirection == 0 && tsol > tend))
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+ || (posdirection == 0 && tsol > tend))
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&& status == 0)
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{
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if (IDASolve (mem, tend, &tsol, yy, yyp, IDA_ONE_STEP) != 0)
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@@ -692,7 +727,7 @@
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// Linear interpolation
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ie(0) = index(0);
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te(0) = tsol - val (index(0)) * (tsol - told)
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- / (val (index(0)) - oldval (index(0)));
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+ / (val (index(0)) - oldval (index(0)));
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ColumnVector ytemp
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= y - ((tsol - te(0)) * (y - yold) / (tsol - told));
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@@ -717,7 +752,7 @@
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// Linear interpolation
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ie(temp+i) = index(i);
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te(temp+i) = tsol - val(index(i)) * (tsol - told)
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- / (val(index(i)) - oldval(index(i)));
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+ / (val(index(i)) - oldval(index(i)));
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||||||
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||||||
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ColumnVector ytemp
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= y - (tsol - te (temp + i)) * (y - yold) / (tsol - told);
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@@ -1096,7 +1131,7 @@
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event_fcn = options.getfield("Events").function_value ();
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// Set up linear solver
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- dae.set_up ();
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+ dae.set_up (y0);
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||||||
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// Integrate
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retval = dae.integrate (numt, tspan, y0, yp0, refine,
|
||||||
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# HG changeset patch
|
||||||
|
# User Carlo de Falco <carlo.defalco@polimi.it>
|
||||||
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# Date 1550230515 -3600
|
||||||
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# Fri Feb 15 12:35:15 2019 +0100
|
||||||
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# Node ID 9b27b77d2fec1a334baa7f4b2ec70751f4bf2b99
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||||||
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# Parent 4bf27c090f5695bcf545fc4af15e2a61a3941d46
|
||||||
|
Update detection of sundials in the build system (bug #52475).
|
||||||
|
|
||||||
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* m4/acnclude.m4 : check for sunlinsol_klu.h and sunlinsol_dense.h
|
||||||
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* configure.ac : update check for sundials features
|
||||||
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* script/ode/ode15i.m : update conditionals in tests
|
||||||
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* script/ode/ode15s.m : update conditionals in tests
|
||||||
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* libinterp/dldfcn/__ode15__.cc : udate conditionals in preprocessor directives
|
||||||
|
|
||||||
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diff --git a/configure.ac b/configure.ac
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||||||
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--- a/configure.ac
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||||||
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+++ b/configure.ac
|
||||||
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@@ -2206,15 +2206,15 @@
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||||||
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[], [don't use SUNDIALS IDA library, solvers ode15i and ode15s will be disabled],
|
||||||
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[warn_sundials_ida=
|
||||||
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OCTAVE_CHECK_SUNDIALS_SIZEOF_REALTYPE
|
||||||
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- OCTAVE_CHECK_SUNDIALS_IDA_DENSE
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||||||
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- OCTAVE_CHECK_SUNDIALS_IDAKLU])
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||||||
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+ OCTAVE_CHECK_SUNDIALS_SUNLINSOL_DENSE
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+ OCTAVE_CHECK_SUNDIALS_SUNLINSOL_KLU])
|
||||||
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LIBS="$save_LIBS"
|
||||||
|
|
||||||
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dnl Define this way instead of with an #if in oct-conf-post.h so that
|
||||||
|
dnl the build features script will get the correct value.
|
||||||
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if test -n "$SUNDIALS_IDA_LIBS" \
|
||||||
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&& test -n "$SUNDIALS_NVECSERIAL_LIBS" \
|
||||||
|
- && test $octave_cv_sundials_ida_dense = yes \
|
||||||
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+ && test $octave_cv_sundials_sunlinsol_dense = yes \
|
||||||
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&& test $octave_cv_sundials_realtype_is_double = yes; then
|
||||||
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AC_DEFINE(HAVE_SUNDIALS, 1, [Define to 1 if SUNDIALS is available.])
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||||||
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fi
|
||||||
|
diff --git a/libinterp/dldfcn/__ode15__.cc b/libinterp/dldfcn/__ode15__.cc
|
||||||
|
--- a/libinterp/dldfcn/__ode15__.cc
|
||||||
|
+++ b/libinterp/dldfcn/__ode15__.cc
|
||||||
|
@@ -45,15 +45,31 @@
|
||||||
|
# include <ida/ida.h>
|
||||||
|
# endif
|
||||||
|
|
||||||
|
-# if defined (HAVE_IDA_IDA_DENSE_H)
|
||||||
|
-# include <ida/ida_dense.h>
|
||||||
|
+# if defined (HAVE_SUNDIALS_SUNDIALS_MATRIX_H)
|
||||||
|
+# include <sundials/sundials_matrix.h>
|
||||||
|
+# endif
|
||||||
|
+
|
||||||
|
+# if defined (HAVE_SUNDIALS_SUNDIALS_LINEARSOLVER_H)
|
||||||
|
+# include <sundials/sundials_linearsolver.h>
|
||||||
|
+# endif
|
||||||
|
+
|
||||||
|
+# if defined (HAVE_SUNLINSOL_SUNLINSOL_DENSE_H)
|
||||||
|
+# include <sunlinsol/sunlinsol_dense.h>
|
||||||
|
# endif
|
||||||
|
|
||||||
|
-# if defined (HAVE_IDA_IDA_KLU_H)
|
||||||
|
-# include <ida/ida_klu.h>
|
||||||
|
+# if defined (HAVE_IDA_IDA_DIRECT_H)
|
||||||
|
+# include <ida/ida_direct.h>
|
||||||
|
+# endif
|
||||||
|
+
|
||||||
|
+# if defined (HAVE_SUNDIALS_SUNDIALS_SPARSE_H)
|
||||||
|
# include <sundials/sundials_sparse.h>
|
||||||
|
# endif
|
||||||
|
|
||||||
|
+
|
||||||
|
+# if defined (HAVE_SUNLINSOL_SUNLINSOL_KLU_H)
|
||||||
|
+# include <sunlinsol/sunlinsol_klu.h>
|
||||||
|
+# endif
|
||||||
|
+
|
||||||
|
# if defined (HAVE_NVECTOR_NVECTOR_SERIAL_H)
|
||||||
|
# include <nvector/nvector_serial.h>
|
||||||
|
# endif
|
||||||
|
@@ -221,7 +237,7 @@
|
||||||
|
jacdense_impl (realtype t, realtype cj,
|
||||||
|
N_Vector& yy, N_Vector& yyp, SUNMatrix& JJ);
|
||||||
|
|
||||||
|
-# if defined (HAVE_SUNDIALS_IDAKLU)
|
||||||
|
+# if defined (HAVE_SUNDIALS_SUNLINSOL_KLU)
|
||||||
|
static int
|
||||||
|
jacsparse (realtype t, realtype cj, N_Vector yy, N_Vector yyp,
|
||||||
|
N_Vector, SUNMatrix Jac, void *user_data, N_Vector,
|
||||||
|
@@ -338,7 +354,7 @@
|
||||||
|
|
||||||
|
if (havejacsparse)
|
||||||
|
{
|
||||||
|
-# if defined (HAVE_SUNDIALS_IDAKLU)
|
||||||
|
+#if defined (HAVE_SUNDIALS_SUNLINSOL_KLU)
|
||||||
|
|
||||||
|
sunJacMatrix = SUNSparseMatrix (num, num, num*num, CSC_MAT);
|
||||||
|
if (! sunJacMatrix)
|
||||||
|
@@ -405,7 +421,7 @@
|
||||||
|
END_INTERRUPT_WITH_EXCEPTIONS;
|
||||||
|
}
|
||||||
|
|
||||||
|
-# if defined (HAVE_SUNDIALS_IDAKLU)
|
||||||
|
+# if defined (HAVE_SUNDIALS_SUNLINSOL_KLU)
|
||||||
|
void
|
||||||
|
IDA::jacsparse_impl (realtype t, realtype cj, N_Vector& yy, N_Vector& yyp,
|
||||||
|
SUNMatrix& Jac)
|
||||||
|
diff --git a/m4/acinclude.m4 b/m4/acinclude.m4
|
||||||
|
--- a/m4/acinclude.m4
|
||||||
|
+++ b/m4/acinclude.m4
|
||||||
|
@@ -2210,14 +2210,11 @@
|
||||||
|
dnl precision realtype.
|
||||||
|
dnl
|
||||||
|
AC_DEFUN([OCTAVE_CHECK_SUNDIALS_SIZEOF_REALTYPE], [
|
||||||
|
- AC_CHECK_HEADERS([ida/ida.h ida.h])
|
||||||
|
AC_CACHE_CHECK([whether SUNDIALS IDA is configured with double precision realtype],
|
||||||
|
[octave_cv_sundials_realtype_is_double],
|
||||||
|
[AC_COMPILE_IFELSE([AC_LANG_PROGRAM([[
|
||||||
|
#if defined (HAVE_IDA_IDA_H)
|
||||||
|
#include <ida/ida.h>
|
||||||
|
- #else
|
||||||
|
- #include <ida.h>
|
||||||
|
#endif
|
||||||
|
#include <assert.h>
|
||||||
|
]], [[
|
||||||
|
@@ -2233,61 +2230,72 @@
|
||||||
|
fi
|
||||||
|
])
|
||||||
|
dnl
|
||||||
|
-dnl Check whether SUNDIALS IDA library is configured with IDAKLU
|
||||||
|
+dnl Check whether SUNDIALS IDA library is configured with SUNLINSOL_KLU
|
||||||
|
dnl enabled.
|
||||||
|
dnl
|
||||||
|
-AC_DEFUN([OCTAVE_CHECK_SUNDIALS_IDAKLU], [
|
||||||
|
- AC_CHECK_HEADERS([ida/ida_klu.h ida_klu.h])
|
||||||
|
- AC_CACHE_CHECK([whether SUNDIALS IDA is configured with IDAKLU enabled],
|
||||||
|
- [octave_cv_sundials_idaklu],
|
||||||
|
+AC_DEFUN([OCTAVE_CHECK_SUNDIALS_SUNLINSOL_KLU], [
|
||||||
|
+ AC_CHECK_HEADERS([sundials/sundials_sparse.h sunlinsol/sunlinsol_klu.h])
|
||||||
|
+ AC_CACHE_CHECK([whether SUNDIALS IDA is configured with SUNLINSOL_KLU enabled],
|
||||||
|
+ [octave_cv_sundials_sunlinsol_klu],
|
||||||
|
[AC_COMPILE_IFELSE([AC_LANG_PROGRAM([[
|
||||||
|
- #if defined (HAVE_IDA_IDA_KLU_H)
|
||||||
|
- #include <ida/ida_klu.h>
|
||||||
|
- #else
|
||||||
|
- #include <ida_klu.h>
|
||||||
|
+ #if defined (HAVE_IDA_IDA_H)
|
||||||
|
+ #include <ida/ida.h>
|
||||||
|
+ #endif
|
||||||
|
+ #if defined (HAVE_SUNDIALS_SUNDIALS_SPARSE_H)
|
||||||
|
+ #include <sundials/sundials_sparse.h>
|
||||||
|
+ #endif
|
||||||
|
+ #if defined (HAVE_SUNLINSOL_SUNLINSOL_KLU_H)
|
||||||
|
+ #include <sunlinsol/sunlinsol_klu.h>
|
||||||
|
#endif
|
||||||
|
]], [[
|
||||||
|
- IDAKLU (0, 0, 0, 0);
|
||||||
|
+ SUNKLU (0, 0);
|
||||||
|
]])],
|
||||||
|
- octave_cv_sundials_idaklu=yes,
|
||||||
|
- octave_cv_sundials_idaklu=no)
|
||||||
|
+ octave_cv_sundials_sunlinsol_klu=yes,
|
||||||
|
+ octave_cv_sundials_sunlinsol_klu=no)
|
||||||
|
])
|
||||||
|
- if test $octave_cv_sundials_idaklu = yes; then
|
||||||
|
- AC_DEFINE(HAVE_SUNDIALS_IDAKLU, 1,
|
||||||
|
- [Define to 1 if SUNDIALS IDA is configured with IDAKLU enabled.])
|
||||||
|
+ if test $octave_cv_sundials_sunlinsol_klu = yes; then
|
||||||
|
+ AC_DEFINE(HAVE_SUNDIALS_SUNLINSOL_KLU, 1,
|
||||||
|
+ [Define to 1 if SUNDIALS IDA is configured with SUNLINSOL_KLU enabled.])
|
||||||
|
else
|
||||||
|
- warn_sundials_idaklu="SUNDIALS IDA library not configured with IDAKLU, ode15i and ode15s will not support the sparse Jacobian feature"
|
||||||
|
- OCTAVE_CONFIGURE_WARNING([warn_sundials_idaklu])
|
||||||
|
+ warn_sundials_idaklu="SUNDIALS IDA library not configured with SUNLINSOL_KLU, ode15i and ode15s will not support the sparse Jacobian feature"
|
||||||
|
+ OCTAVE_CONFIGURE_WARNING([warn_sundials_sunlinsol_klu])
|
||||||
|
fi
|
||||||
|
])
|
||||||
|
dnl
|
||||||
|
-dnl Check whether SUNDIALS IDA library has the IDADENSE linear solver.
|
||||||
|
+dnl Check whether SUNDIALS IDA library has the SUNLINSOL_DENSE linear solver.
|
||||||
|
dnl The IDADENSE API was removed in SUNDIALS version 3.0.0.
|
||||||
|
dnl
|
||||||
|
-AC_DEFUN([OCTAVE_CHECK_SUNDIALS_IDA_DENSE], [
|
||||||
|
- AC_CHECK_HEADERS([ida/ida_dense.h ida_dense.h])
|
||||||
|
- AC_CACHE_CHECK([whether SUNDIALS IDA includes the IDADENSE linear solver],
|
||||||
|
- [octave_cv_sundials_ida_dense],
|
||||||
|
+AC_DEFUN([OCTAVE_CHECK_SUNDIALS_SUNLINSOL_DENSE], [
|
||||||
|
+ AC_CHECK_HEADERS([sunlinsol/sunlinsol_dense.h sundials/sundials_matrix.h sundials/sundials_linearsolver.h ida/ida_direct.h])
|
||||||
|
+ AC_CACHE_CHECK([whether SUNDIALS IDA includes the SUNLINSOL_DENSE linear solver],
|
||||||
|
+ [octave_cv_sundials_sunlinsol_dense],
|
||||||
|
[AC_COMPILE_IFELSE([AC_LANG_PROGRAM([[
|
||||||
|
- #if defined (HAVE_IDA_IDA_DENSE_H)
|
||||||
|
- #include <ida/ida_dense.h>
|
||||||
|
- #else
|
||||||
|
- #include <ida_dense.h>
|
||||||
|
+ #if defined (HAVE_IDA_IDA_H)
|
||||||
|
+ #include <ida/ida.h>
|
||||||
|
+ #endif
|
||||||
|
+ #if defined (HAVE_SUNDIALS_SUNDIALS_MATRIX_H)
|
||||||
|
+ #include <sundials/sundials_matrix.h>
|
||||||
|
#endif
|
||||||
|
+ #if defined (HAVE_SUNDIALS_SUNDIALS_LINEARSOLVER_H)
|
||||||
|
+ #include <sundials/sundials_linearsolver.h>
|
||||||
|
+ #endif
|
||||||
|
+ #if defined (HAVE_IDA_IDA_DIRECT_H)
|
||||||
|
+ #include <ida/ida_direct.h>
|
||||||
|
+ #endif
|
||||||
|
]], [[
|
||||||
|
void *mem = 0;
|
||||||
|
long int num = 0;
|
||||||
|
IDADense (mem, num);
|
||||||
|
]])],
|
||||||
|
- octave_cv_sundials_ida_dense=yes,
|
||||||
|
- octave_cv_sundials_ida_dense=no)
|
||||||
|
+ octave_cv_sundials_sunlinsol_dense=yes,
|
||||||
|
+ octave_cv_sundials_sunlinsol_dense=no)
|
||||||
|
])
|
||||||
|
- if test $octave_cv_sundials_ida_dense = yes; then
|
||||||
|
- AC_DEFINE(HAVE_SUNDIALS_IDADENSE, 1,
|
||||||
|
- [Define to 1 if SUNDIALS IDA includes the IDADENSE linear solver.])
|
||||||
|
+ if test $octave_cv_sundials_sunlinsol_dense = yes; then
|
||||||
|
+ AC_DEFINE(HAVE_SUNDIALS_SUNLINSOL_DENSE, 1,
|
||||||
|
+ [Define to 1 if SUNDIALS IDA includes the SUNLINSOL_DENSE linear solver.])
|
||||||
|
else
|
||||||
|
- warn_sundials_ida_dense="SUNDIALS IDA library does not include the IDADENSE linear solver, ode15i and ode15s will be disabled"
|
||||||
|
- OCTAVE_CONFIGURE_WARNING([warn_sundials_ida_dense])
|
||||||
|
+ warn_sundials_ida_dense="SUNDIALS IDA library does not include the SUNLINSOL_DENSE linear solver, ode15i and ode15s will be disabled"
|
||||||
|
+ OCTAVE_CONFIGURE_WARNING([warn_sundials_sunlinsol_dense])
|
||||||
|
fi
|
||||||
|
])
|
||||||
|
dnl
|
||||||
|
diff --git a/scripts/ode/ode15i.m b/scripts/ode/ode15i.m
|
||||||
|
--- a/scripts/ode/ode15i.m
|
||||||
|
+++ b/scripts/ode/ode15i.m
|
||||||
|
@@ -452,7 +452,7 @@
|
||||||
|
%! assert ([t(end), y(end,:)], fref, 1e-3);
|
||||||
|
|
||||||
|
## Jacobian fun sparse
|
||||||
|
-%!testif HAVE_SUNDIALS_IDAKLU
|
||||||
|
+%!testif HAVE_SUNDIALS_SUNLINSOL_KLU
|
||||||
|
%! opt = odeset ("Jacobian", @jacfunsparse, "AbsTol", 1e-7, "RelTol", 1e-7);
|
||||||
|
%! [t, y] = ode15i (@rob, [0, 100], [1; 0; 0], [-1e-4; 1e-4; 0], opt);
|
||||||
|
%! assert ([t(end), y(end,:)], fref, 1e-3);
|
||||||
|
@@ -545,7 +545,7 @@
|
||||||
|
%! "invalid value assigned to field 'Jacobian'");
|
||||||
|
|
||||||
|
## Jacobian cell sparse wrong dimension
|
||||||
|
-%!testif HAVE_SUNDIALS_IDAKLU
|
||||||
|
+%!testif HAVE_SUNDIALS_SUNLINSOL_KLU
|
||||||
|
%! DFDY = sparse ([-0.04, 1;
|
||||||
|
%! 0.04, 1]);
|
||||||
|
%! DFDYP = sparse ([-1, 0, 0;
|
||||||
|
diff --git a/scripts/ode/ode15s.m b/scripts/ode/ode15s.m
|
||||||
|
--- a/scripts/ode/ode15s.m
|
||||||
|
+++ b/scripts/ode/ode15s.m
|
||||||
|
@@ -545,21 +545,21 @@
|
||||||
|
%! [t, y] = ode15s (@rob, [0, 100], [1; 0; 0], opt);
|
||||||
|
%! assert ([t(end), y(end,:)], frefrob, 1e-3);
|
||||||
|
|
||||||
|
-%!testif HAVE_SUNDIALS_IDAKLU
|
||||||
|
+%!testif HAVE_SUNDIALS_SUNLINSOL_KLU
|
||||||
|
%! opt = odeset ("MStateDependence", "none",
|
||||||
|
%! "Mass", [1, 0, 0; 0, 1, 0; 0, 0, 0],
|
||||||
|
%! "Jacobian", @jacfunsparse);
|
||||||
|
%! [t, y] = ode15s (@rob, [0, 100], [1; 0; 0], opt);
|
||||||
|
%! assert ([t(end), y(end,:)], frefrob, 1e-3);
|
||||||
|
|
||||||
|
-%!testif HAVE_SUNDIALS_IDAKLU
|
||||||
|
+%!testif HAVE_SUNDIALS_SUNLINSOL_KLU
|
||||||
|
%! opt = odeset ("MStateDependence", "none",
|
||||||
|
%! "Mass", sparse ([1, 0, 0; 0, 1, 0; 0, 0, 0]),
|
||||||
|
%! "Jacobian", @jacfunsparse);
|
||||||
|
%! [t, y] = ode15s (@rob, [0, 100], [1; 0; 0], opt);
|
||||||
|
%! assert ([t(end), y(end,:)], frefrob, 1e-3);
|
||||||
|
|
||||||
|
-%!testif HAVE_SUNDIALS_IDAKLU
|
||||||
|
+%!testif HAVE_SUNDIALS_SUNLINSOL_KLU
|
||||||
|
%! warning ("off", "ode15s:mass_state_dependent_provided", "local");
|
||||||
|
%! opt = odeset ("MStateDependence", "none",
|
||||||
|
%! "Mass", @massdensefunstate,
|
||||||
|
@@ -575,14 +575,14 @@
|
||||||
|
%! [t, y] = ode15s (@rob, [0, 100], [1; 0; 0], opt);
|
||||||
|
%! assert ([t(end), y(end,:)], frefrob, 1e-3);
|
||||||
|
|
||||||
|
-%!testif HAVE_SUNDIALS_IDAKLU
|
||||||
|
+%!testif HAVE_SUNDIALS_SUNLINSOL_KLU
|
||||||
|
%! opt = odeset ("MStateDependence", "none",
|
||||||
|
%! "Mass", @massdensefuntime,
|
||||||
|
%! "Jacobian", @jacfunsparse);
|
||||||
|
%! [t, y] = ode15s (@rob, [0, 100], [1; 0; 0], opt);
|
||||||
|
%! assert ([t(end), y(end,:)], frefrob, 1e-3);
|
||||||
|
|
||||||
|
-%!testif HAVE_SUNDIALS_IDAKLU
|
||||||
|
+%!testif HAVE_SUNDIALS_SUNLINSOL_KLU
|
||||||
|
%! opt = odeset ("MStateDependence", "none",
|
||||||
|
%! "Mass", @masssparsefuntime,
|
||||||
|
%! "Jacobian", @jacfunsparse);
|
||||||
|
# HG changeset patch
|
||||||
|
# Parent 6ef7a85c3b1908f57665a08d1d7205c15018c2af
|
||||||
|
|
||||||
|
diff --git a/libinterp/dldfcn/__ode15__.cc b/libinterp/dldfcn/__ode15__.cc
|
||||||
|
--- a/libinterp/dldfcn/__ode15__.cc
|
||||||
|
+++ b/libinterp/dldfcn/__ode15__.cc
|
||||||
|
@@ -67,6 +67,18 @@
|
||||||
|
|
||||||
|
|
||||||
|
# if defined (HAVE_SUNLINSOL_SUNLINSOL_KLU_H)
|
||||||
|
+# if defined (HAVE_KLU_H)
|
||||||
|
+# include <klu.h>
|
||||||
|
+# endif
|
||||||
|
+# if defined (HAVE_KLU_KLU_H)
|
||||||
|
+# include <klu/klu.h>
|
||||||
|
+# endif
|
||||||
|
+# if defined (HAVE_SUITESPARSE_KLU_H)
|
||||||
|
+# include <suitesparse/klu.h>
|
||||||
|
+# endif
|
||||||
|
+# if defined (HAVE_UFPARSE_KLU_H)
|
||||||
|
+# include <ufsparse/klu.h>
|
||||||
|
+# endif
|
||||||
|
# include <sunlinsol/sunlinsol_klu.h>
|
||||||
|
# endif
|
||||||
|
|
||||||
|
diff --git a/m4/acinclude.m4 b/m4/acinclude.m4
|
||||||
|
--- a/m4/acinclude.m4
|
||||||
|
+++ b/m4/acinclude.m4
|
||||||
|
@@ -2244,6 +2244,18 @@
|
||||||
|
#if defined (HAVE_SUNDIALS_SUNDIALS_SPARSE_H)
|
||||||
|
#include <sundials/sundials_sparse.h>
|
||||||
|
#endif
|
||||||
|
+ #if defined (HAVE_KLU_H)
|
||||||
|
+ #include <klu.h>
|
||||||
|
+ #endif
|
||||||
|
+ #if defined (HAVE_KLU_KLU_H)
|
||||||
|
+ #include <klu/klu.h>
|
||||||
|
+ #endif
|
||||||
|
+ #if defined (HAVE_SUITESPARSE_KLU_H)
|
||||||
|
+ #include <suitesparse/klu.h>
|
||||||
|
+ #endif
|
||||||
|
+ #if defined (HAVE_UFPARSE_KLU_H)
|
||||||
|
+ #include <ufsparse/klu.h>
|
||||||
|
+ #endif
|
||||||
|
#if defined (HAVE_SUNLINSOL_SUNLINSOL_KLU_H)
|
||||||
|
#include <sunlinsol/sunlinsol_klu.h>
|
||||||
|
#endif
|
||||||
@@ -0,0 +1,126 @@
|
|||||||
|
<?xml version="1.0" ?>
|
||||||
|
<!DOCTYPE PISI SYSTEM "https://www.pisilinux.org/projeler/pisi/pisi-spec.dtd">
|
||||||
|
<PISI>
|
||||||
|
<Source>
|
||||||
|
<Name>octave</Name>
|
||||||
|
<Homepage>https://www.gnu.org/software/octave/</Homepage>
|
||||||
|
<Packager>
|
||||||
|
<Name>Blue Devil</Name>
|
||||||
|
<Email>bluedevil@sctzine.com</Email>
|
||||||
|
</Packager>
|
||||||
|
<PartOf>science.mathematics</PartOf>
|
||||||
|
<License>GPL</License>
|
||||||
|
<IsA>library</IsA>
|
||||||
|
<IsA>app:gui</IsA>
|
||||||
|
<Summary>A high-level language, primarily intended for numerical computations.</Summary>
|
||||||
|
<Description>GNU Octave is software featuring a high-level programming language, primarily intended for numerical computations. Octave helps in solving linear and nonlinear problems numerically, and for performing other numerical experiments using a language that is mostly compatible with MATLAB. It may also be used as a batch-oriented language. </Description>
|
||||||
|
<Archive sha1sum="bc9e4ceed93c7f7dcc692daeb9dccb182b2d5e9e" type="targz">https://ftp.gnu.org/gnu/octave/octave-5.2.0.tar.gz</Archive>
|
||||||
|
<BuildDependencies>
|
||||||
|
<Dependency>gperf</Dependency>
|
||||||
|
<Dependency>gnuplot</Dependency>
|
||||||
|
<Dependency>qrupdate</Dependency>
|
||||||
|
<Dependency>blas-devel</Dependency>
|
||||||
|
<Dependency>curl-devel</Dependency>
|
||||||
|
<Dependency>glpk-devel</Dependency>
|
||||||
|
<Dependency>hdf5-devel</Dependency>
|
||||||
|
<Dependency>fltk-devel</Dependency>
|
||||||
|
<Dependency>fftw3-devel</Dependency>
|
||||||
|
<Dependency>qhull-devel</Dependency>
|
||||||
|
<Dependency>arpack-devel</Dependency>
|
||||||
|
<Dependency>lapack-devel</Dependency>
|
||||||
|
<Dependency>qt5-linguist</Dependency>
|
||||||
|
<Dependency>libpcre-devel</Dependency>
|
||||||
|
<Dependency>freetype-devel</Dependency>
|
||||||
|
<Dependency>mesa-glu-devel</Dependency>
|
||||||
|
<Dependency>qt5-base-devel</Dependency>
|
||||||
|
<Dependency>readline-devel</Dependency>
|
||||||
|
<Dependency>sundials-devel</Dependency>
|
||||||
|
<Dependency>portaudio-devel</Dependency>
|
||||||
|
<Dependency>fontconfig-devel</Dependency>
|
||||||
|
<Dependency>libsndfile-devel</Dependency>
|
||||||
|
<Dependency>ghostscript-devel</Dependency>
|
||||||
|
<Dependency>qscintilla2-devel</Dependency>
|
||||||
|
<Dependency>SuiteSparse-devel</Dependency>
|
||||||
|
<Dependency>qt5-assistant-devel</Dependency>
|
||||||
|
<Dependency>GraphicsMagick-devel</Dependency>
|
||||||
|
<!--
|
||||||
|
-->
|
||||||
|
</BuildDependencies>
|
||||||
|
<Patches>
|
||||||
|
<!-- Fix sundials support: https://savannah.gnu.org/bugs/?52475 -->
|
||||||
|
<Patch>octave-sundials4.patch</Patch>
|
||||||
|
</Patches>
|
||||||
|
</Source>
|
||||||
|
|
||||||
|
<Package>
|
||||||
|
<Name>octave</Name>
|
||||||
|
<Summary>A high-level language, primarily intended for numerical computations.</Summary>
|
||||||
|
<RuntimeDependencies>
|
||||||
|
<Dependency>blas</Dependency>
|
||||||
|
<Dependency>curl</Dependency>
|
||||||
|
<Dependency>fltk</Dependency>
|
||||||
|
<Dependency>glpk</Dependency>
|
||||||
|
<Dependency>hdf5</Dependency>
|
||||||
|
<Dependency>fftw3</Dependency>
|
||||||
|
<Dependency>qhull</Dependency>
|
||||||
|
<Dependency>arpack</Dependency>
|
||||||
|
<Dependency>lapack</Dependency>
|
||||||
|
<Dependency>libXft</Dependency>
|
||||||
|
<Dependency>libpcre</Dependency>
|
||||||
|
<Dependency>libXext</Dependency>
|
||||||
|
<Dependency>libgomp</Dependency>
|
||||||
|
<Dependency>alsa-lib</Dependency>
|
||||||
|
<Dependency>libglvnd</Dependency>
|
||||||
|
<Dependency>mesa-glu</Dependency>
|
||||||
|
<Dependency>freetype</Dependency>
|
||||||
|
<Dependency>qrupdate</Dependency>
|
||||||
|
<Dependency>qt5-base</Dependency>
|
||||||
|
<Dependency>readline</Dependency>
|
||||||
|
<Dependency>sundials</Dependency>
|
||||||
|
<Dependency>libXfixes</Dependency>
|
||||||
|
<Dependency>portaudio</Dependency>
|
||||||
|
<Dependency>fontconfig</Dependency>
|
||||||
|
<Dependency>libsndfile</Dependency>
|
||||||
|
<Dependency>libXcursor</Dependency>
|
||||||
|
<Dependency>libXrender</Dependency>
|
||||||
|
<Dependency>ghostscript</Dependency>
|
||||||
|
<Dependency>libgfortran</Dependency>
|
||||||
|
<Dependency>libXinerama</Dependency>
|
||||||
|
<Dependency>qscintilla2</Dependency>
|
||||||
|
<Dependency>SuiteSparse</Dependency>
|
||||||
|
<Dependency>qt5-assistant</Dependency>
|
||||||
|
<Dependency>GraphicsMagick</Dependency>
|
||||||
|
</RuntimeDependencies>
|
||||||
|
<Files>
|
||||||
|
<Path fileType="library">/usr/lib</Path>
|
||||||
|
<Path fileType="data">/usr/share/</Path>
|
||||||
|
<Path fileType="man">/usr/share/man</Path>
|
||||||
|
<Path fileType="executable">/usr/bin</Path>
|
||||||
|
<Path fileType="executable">/usr/libexec</Path>
|
||||||
|
<Path fileType="doc">/usr/share/doc/octave</Path>
|
||||||
|
<Path fileType="config">/etc/ld.so.conf.d/octave.conf</Path>
|
||||||
|
</Files>
|
||||||
|
</Package>
|
||||||
|
|
||||||
|
<Package>
|
||||||
|
<Name>octave-devel</Name>
|
||||||
|
<Summary>Development files for octave</Summary>
|
||||||
|
<RuntimeDependencies>
|
||||||
|
<Dependency release="current">octave</Dependency>
|
||||||
|
</RuntimeDependencies>
|
||||||
|
<Files>
|
||||||
|
<Path fileType="header">/usr/include</Path>
|
||||||
|
<Path fileType="data">/usr/lib/pkgconfig</Path>
|
||||||
|
</Files>
|
||||||
|
</Package>
|
||||||
|
|
||||||
|
<History>
|
||||||
|
<Update release="1">
|
||||||
|
<Date>2020-05-22</Date>
|
||||||
|
<Version>5.2.0</Version>
|
||||||
|
<Comment>First pisi release.</Comment>
|
||||||
|
<Name>Blue Devil</Name>
|
||||||
|
<Email>bluedevil@sctzine.com</Email>
|
||||||
|
</Update>
|
||||||
|
</History>
|
||||||
|
</PISI>
|
||||||
@@ -0,0 +1,14 @@
|
|||||||
|
<?xml version="1.0" ?>
|
||||||
|
<PISI>
|
||||||
|
<Source>
|
||||||
|
<Name>octave</Name>
|
||||||
|
<Summary xml:lang="tr">Özellikle sayısal hesaplamalar için geliştirilmiş yüksek seviyeli bir programlama dili.</Summary>
|
||||||
|
<Description xml:lang="tr">octave, özellikle sayısal hesaplamalar için geliştirilmiş yüksek seviyeli bir programlama dilidir. Octave doğrusal ve doğrusal olmayan sayısal problemleri çözmede yardımcı olur.</Description>
|
||||||
|
</Source>
|
||||||
|
|
||||||
|
<Package>
|
||||||
|
<Name>octave-devel</Name>
|
||||||
|
<Summary xml:lang="tr">octave için geliştirme dosyaları</Summary>
|
||||||
|
<Description xml:lang="tr">octave-devel, octave için geliştirme dosyalarını içerir.</Description>
|
||||||
|
</Package>
|
||||||
|
</PISI>
|
||||||
Reference in New Issue
Block a user