macaulay2

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macaulay2 [2007/10/25 06:43] – gerardmacaulay2 [2017/08/25 09:56] (Version actuelle) – modification externe 127.0.0.1
Ligne 1: Ligne 1:
 +Macaulay2
 +
 +<note important>Depuis 2016, s'installe à partir de dépots comme http://www.math.uiuc.edu/Macaulay2/Downloads/GNU-Linux/Ubuntu/index.html</note>
 +====== 1.4 sur octopus ======
 +<code>
 +rpm -ivh Macaulay2-1.4-1.common.rpm
 +rpm -ivh Macaulay2-1.4-1.x86_64-Linux-ScientificLinux-5.5.rpm 
 +</code>
 +
 +Vérification simple:
 +<code>
 +[henry@octopus ~]$ M2
 +Macaulay2, version 1.4
 +with packages: ConwayPolynomials, Elimination, IntegralClosure, LLLBases,
 +               PrimaryDecomposition, ReesAlgebra, TangentCone
 +
 +i1 : 2+2
 +
 +o1 = 4
 +</code>
 +
 +
 +====== installation des binaires ======
 +  * sur calypso et t2000
 +  * [[http://www.math.uiuc.edu/Macaulay2/Downloads/Solaris%20and%20SunOS/Macaulay2-0.9.2-sparc-SunOS-5.8.tar.gz|0.9.2]]
 +  * Utilisation: /usr/local/Macaulay2-0.9.2/bin/M2
 +
 +
 +===== shrek =====
 +<code>
 +shrek:~# dpkg -i Macaulay2-0.9.95-i386-Linux.deb 
 +Selecting previously deselected package macaulay2.
 +(Reading database ... 22381 files and directories currently installed.)
 +Unpacking macaulay2 (from Macaulay2-0.9.95-i386-Linux.deb) ...
 +Setting up macaulay2 (0.9.95) ...
 +Macaulay 2, version 0.9.95
 +with packages: Classic, Core, Elimination, IntegralClosure, LLLBases, Parsing,
 +               PrimaryDecomposition, SchurRings, TangentCone
 +--dumping to /usr/lib/Macaulay2/Core/cache/Macaulay2-i686-data.tmp
 +--success
 +--moving: /usr/lib/Macaulay2/Core/cache/Macaulay2-i686-data.tmp -> /usr/lib/Macaulay2/Core/cache/Macaulay2-i686-data
 +
 +</code>
 +
 +====== compilation version stable ======
 +
 +
   * [[http://www.math.uiuc.edu/Macaulay2/|Home Page]]   * [[http://www.math.uiuc.edu/Macaulay2/|Home Page]]
   * compilé sur nemo, version 0.9.95   * compilé sur nemo, version 0.9.95
   * en 32 bits pour commencer   * en 32 bits pour commencer
-  * options de compilation, voir script do_work.sh+  * options de compilation, voir scripts do_work.sh dans chaque répertoire 
 +  * blas et lapack font partie de la Sun Perf Lib (--with-lapacklibs="-lsunperf")
  
 Les librairies nécessaires Les librairies nécessaires
Ligne 13: Ligne 61:
 | ntl or Singular-ntl | ntl-5.4.1.tar.gz | /local/henry/logiciels/{lib,include} | /local/henry/ntl-5.4.1/src/{MAKE,INSTALL}.LOG | | ntl or Singular-ntl | ntl-5.4.1.tar.gz | /local/henry/logiciels/{lib,include} | /local/henry/ntl-5.4.1/src/{MAKE,INSTALL}.LOG |
  
 +====== compilation version stable (tout est recompilé) ======
 +  * version 0.9.95
 +  * en 32 bits
 +  * options de compilation, voir scripts do_work.sh dans chaque répertoire
 +  * blas et lapack font partie de la Sun Perf Lib (--with-lapacklibs="-lsunperf")
 +
 +Les librairies nécessaires
 +^ nom ^ archive  ^ installée dans ^ logs |
 +| Singular-Factory | factory-3-0-2.tar.gz | /local/henry/logiciels/{lib,include} | /local/henry/factory/{WORK,MAKE_GFTABLES,INSTALL}.LOG |
 +| Singular-Libfac | libfac-3-0-2.tar.gz | /local/henry/logiciels/{lib,include} | /local/henry/libfac/WORK.LOG |
 +| gmp | 4.2.2 | /local/henry/logiciels/{lib,include} | /local/henry/gmp-4.2.2/WORK.LOG |
 +| gc | gc-7.0.tar.gz | /local/henry/logiciels/{lib,include} | /local/henry/gc-7.0/{WORK,CHECK}.LOG |
 +| gdbm | 1.8.3 | /local/henry/logiciels/{lib,include} | /local/henry/gdbm-1.8.3/WORK.LOG |
 +| readline | 5.2 | /local/henry/logiciels/{lib,include} | /local/henry/readline-5.2/WORK.LOG |
 +| ncurses | 5.6 | /local/henry/logiciels/{lib,include} | /local/henry/ncurses-5.6/WORK.LOG |
 +| ntl or Singular-ntl | ntl-5.4.1.tar.gz | /local/henry/logiciels/{lib,include} | /local/henry/ntl-5.4.1/src/{MAKE,INSTALL}.LOG |
 +
 +La compilation échoue:
 +<code>
 +../c/scc1 -dep -J. ../../../Macaulay2/d/C.d
 +../../../Macaulay2/c/chk.c:2512: assertion failed
 +../../../Macaulay2/c/readfile.c:273: <- here
 +make[2]: *** [C.dep] Error 1
 +make[2]: Leaving directory `/local/henry/M2/BUILD/Macaulay2/d'
 +
 +</code>
 +
 +
 +
 +
 +
 +
 +====== version svn ======
 +<code>
 +nemo-dgrayson% svn co svn://macaulay2.math.uiuc.edu/Macaulay2/trunk/M2
 +...
 +Checked out revision 5981.
 +nemo-dgrayson% cd M2
 +/home/dgrayson/M2
 +nemo-dgrayson% make
 ++ autoconf
 ++ rm -f include/config.h.in.stamp
 +autoheader
 +touch "include/config.h.in.stamp"
 +--: The configure script in this directory has been prepared.
 +--: To configure and build Macaulay 2:
 +--:
 +     mkdir BUILD/normal
 +     cd BUILD/normal
 +     ../../configure --prefix=/usr/local
 +     make install
 +--:
 +--: To reconfigure and try again:
 +--:
 +     cd BUILD/normal
 +     make reconfigure install
 +--:
 +--: To see all the options to "configure":
 +--:
 +     ./configure --help
 +--:
 +
 +</code>
 +
 +1er problème: ne détecte pas la lib factory:
 +<code>
 +conftest.cpp:6: error: `SW_USE_NTL' undeclared (first use this function)
 +
 +</code>
 +avec le code suivant:
 +<code>
 +#include <factoryconf.h>
 +extern const char * libfac_version;
 +
 +int main () {
 +extern const char factoryVersion[];
 +return SW_USE_NTL;
 +return *factoryVersion;
 +return *libfac_version; }
 +
 +</code>
 +mais SW_USE_NTL n'est déclaré nulle part! (grep -r SW_USE_NTL *). On le supprime!\\
 +Voir les modifs sur le configure.ac
 +<code>
 +diff ../../configure.ac ../../configure.ac.ori
 +413c413
 +< do eval BUILD_$i=yes
 +---
 +> do eval BUILD_$i=no
 +531,532c531,532
 +< test $BUILD_blas = yes && BUILTLIBS="-lsunperf $BUILTLIBS"
 +< test $BUILD_lapack = yes && BUILTLIBS="-lsunperf $BUILTLIBS"
 +---
 +> test $BUILD_blas = yes && BUILTLIBS="-lblas $BUILTLIBS"
 +> test $BUILD_lapack = yes && BUILTLIBS="-llapack $BUILTLIBS"
 +551a552
 +>                 return SW_USE_NTL;
 +591,594c592,595
 +< #for i in $LIBLIST
 +< #do eval t=\$BUILD_$i
 +< #   test "$t" = yes && LIBRARIES="$LIBRARIES $i"
 +< #done
 +---
 +> for i in $LIBLIST
 +> do eval t=\$BUILD_$i
 +>    test "$t" = yes && LIBRARIES="$LIBRARIES $i"
 +> done
 +</code>
 +et enfin, obligé de relinker /bin/sh sur /bin/bash (au lieu de /sbin/sh) sinon le make échoue immédiatement (grrr!)
 +
 +Nouvelle erreur:
 +<code>
 +../../../../../Macaulay2/e/f4/../mem.hpp:123: error: `bzero' undeclared (first use this function)
 +
 +</code>
 +pourquoi utiliser bzero() au lieu de memset()? [[http://www.opengroup.org/onlinepubs/000095399/functions/bzero.html|bzero]]
 +On remplace:
 +<code>
 +nemo-henry% cp -rp Macaulay2/e/f4/../mem.hpp Macaulay2/e/f4/../mem.hpp.ori
 +nemo-henry% diff Macaulay2/e/f4/../mem.hpp.ori Macaulay2/e/f4/../mem.hpp
 +7a8,9
 +> #define bzero(b,len) (memset((b), '\0', (len)), (void) 0)
 +>
 +
 +
 +</code>
 +
 +et toujours l'erreur:
 +<code>
 +../../../../Macaulay2/e/ntl-interface.cpp:56: error: expected unqualified-id before numeric constant
 +../../../../Macaulay2/e/ntl-interface.cpp:56: error: expected `,' or `;' before numeric constant
 +</code>
 +corrigée par:
 +<code>
 +nemo-henry% diff Macaulay2/e/ntl-interface.cpp Macaulay2/e/ntl-interface.cpp.ori
 +56,58d55
 +< #if defined(__sun) && defined(__SVR4)
 +< #undef GS
 +< #endif
 +</code>
 +
 +mais finalement, échoue sur:
 +<code>
 +../c/scc1 -dep -J. ../../../../Macaulay2/d/C.d
 +../../../../Macaulay2/c/chk.c:2512: assertion failed
 +../../../../Macaulay2/c/readfile.c:274: <- here
 +make[2]: *** [C.dep] Error 1
 +make[2]: Leaving directory `/local/henry/Macaulay2/subversion/M2/BUILD/normal/Macaulay2/d'
 +restart: done
 +make[1]: *** [all] Error 2
 +make[1]: Leaving directory `/local/henry/Macaulay2/subversion/M2/BUILD/normal/Macaulay2'
 +make: *** [all] Error 2
 +make: Leaving directory `/local/henry/Macaulay2/subversion/M2/BUILD/normal'
 +</code>
 +En utilisant le debugger:
 +<code>
 +nemo-henry% dbx ../c/scc1
 +For information about new features see `help changes'
 +To remove this message, put `dbxenv suppress_startup_message 7.5' in your .dbxrc
 +Reading scc1
 +Reading ld.so.1
 +Reading libgc.so.1.0.3
 +Reading libm.so.2
 +Reading libc.so.1
 +Reading libpthread.so.1
 +Reading librt.so.1
 +Reading libdl.so.1
 +Reading libgcc_s.so.1
 +Reading libaio.so.1
 +Reading libmd5.so.1
 +(dbx) list                                  
 +(dbx) stop at 189
 +(2) stop at "scc1.c":189
 +(dbx) run -dep -J. ../../../../Macaulay2/d/C.d
 +Running: scc1 -dep -J. ../../../../Macaulay2/d/C.d 
 +(process id 8680)
 +t@1 (l@1) signal SEGV (no mapping at the fault address) in GC_SysVGetDataStart at 0xfef766dc
 +0xfef766dc: GC_SysVGetDataStart+0x0069: movb     (%edx),%dl
 +Current function is newnode1
 +   23        char *p = malloc(n);
 +(dbx) where
 +current thread: t@1
 +  [1] GC_SysVGetDataStart(0x1000, 0x8082ae4, 0xfefc0270, 0x620, 0xfef751b1), at 0xfef766dc 
 +  [2] GC_register_data_segments(0xfef70d16, 0x14, 0x0, 0x0, 0x10, 0xfef8e128), at 0xfef7673e 
 +  [3] GC_init_inner(0x0, 0xfefc0270, 0x1, 0xfef79e04, 0x80472b0, 0xfef93214), at 0xfef751b1 
 +  [4] GC_generic_malloc_many(0x28, 0x1, 0x98, 0xfef79c87), at 0xfef70d16 
 +  [5] GC_malloc(0x27, 0xfefca924, 0xfeffcc58, 0xfef6bf0b), at 0xfef79d4e 
 +  [6] GC_debug_malloc(0x14, 0x807f178, 0x17, 0xfedb63c0), at 0xfef6bf2b 
 +=>[7] newnode1(len = 0, tag = 134509400), line 23 in "scc1.c"
 +  [8] UniqueStringN(s = 0x808288a "do", len = 0), line 233 in "dictionary.c"
 +  [9] UniqueString(s = 0x808288a "do"), line 18 in "type.c"
 +  [10] yyinit(), line 2837 in "grammar.c"
 +  [11] main(argc = 1, argv = 0x80475fc), line 188 in "scc1.c"
 +
 +</code>
 +
 +====== Problèmes ======
 +===== compilation de gmp =====
 +par défaut, le "make check" échoue pour gmp.
 +  * [[http://www.phfactor.net/wp/2006/06/09/gmp-421-on-solaris-10sparcv9-64-bit/|GMP 4.2.1 on Solaris 10/sparcv9, 64-bit]]
 +  * [[http://forums.oracle.com/forums/thread.jspa?messageID=2133670| Correct setting for LD_LIBRARY_PATH on 10gR2 Solaris 10 x86-64]]
 +  * [[http://www.sunfreeware.com/programlistintel10.html]] search gmp
 +  * [[http://ccnuma.anu.edu.au/~wpc/blog/programming/building-python.html|Building Python for Solaris 10 on SPARC]]
 +
 +===== compilation de ntl =====
 +bien entendu, le configure ne prend pas tout en compte, du coup:
 +<code>
 +./configure PREFIX=$HOME/logiciels/64 \
 +GMP_PREFIX=$HOME/logiciels/64 \
 +NTL_GMP_LIP=on NTL_STD_CXX=on NTL_NO_INIT_TRANS=on NTL_CXX_ONLY=on \
 +CC=c++ \
 +CFLAGS="-m64" \
 +LDFLAGS="-m64 -R/usr/sfw/lib/64 -R$HOME/logiciels/64/lib" \
 +
 +</code>
 +
 +===== compilation de factory =====
 +<code>
 +LDFLAGS='-R$HOME/logiciels/64/lib -L$HOME/logiciels/64/lib' \
 +CFLAGS="-O0 -g -m64" \
 +CXXFLAGS="-g -O0 --no-rtti --no-exceptions -m64" \
 +LDFLAGS="-m64 -R/usr/sfw/lib/64 -R$HOME/logiciels/64/lib" \
 +./configure --prefix=$HOME/logiciels/64 \
 +--enable-NTL \
 +--with-gmp=$HOME/logiciels/64/include,$HOME/logiciels/64/lib
 +
 +</code>
 +
 +===== compilation de macaulay2 =====
 +cette erreur:
 +<code>
 + ** compiling ../../../Macaulay2/e/ntl_interface.cpp
 +../../../Macaulay2/e/ntl_interface.cpp:56: error: expected unqualified-id before numeric constant
 +../../../Macaulay2/e/ntl_interface.cpp:56: error: expected `,' or `;' before numeric constant
 +make[2]: *** [ntl_interface.o] Error 1
 +
 +</code>
 +se résoud de la façon suivante:
 +<code>
 +nemo-henry% cp -rp ../Macaulay2/e/ntl_interface.cpp ../Macaulay2/e/ntl_interface.cpp.ori
 +nemo-henry% diff ../Macaulay2/e/ntl_interface.cpp.ori ../Macaulay2/e/ntl_interface.cpp
 +55a56
 +> #undef GS
 +
 +</code>
  • macaulay2.1193287427.txt.gz
  • Dernière modification : 2017/08/25 09:55
  • (modification externe)