[Trilinos-Users] Cygwin Build Problems
Michael Sielemann
michael.sielemann at gmail.com
Wed Jan 14 07:44:35 MST 2009
Dear Ross,
Thanks for your reply and also for your interest.
Using the following GCC...
$ gcc -v
Reading specs from /usr/lib/gcc/i686-pc-cygwin/3.4.4/specs
Configured with: /usr/build/package/orig/test.respin/gcc-3.4.4-3/configure
--verbose --prefix=/usr --exec-prefix=/usr --
sysconfdir=/etc --libdir=/usr/lib --libexecdir=/usr/lib
--mandir=/usr/share/man --infodir=/usr/share/info --enable-langu
ages=c,ada,c++,d,f77,pascal,java,objc --enable-nls
--without-included-gettext --enable-version-specific-runtime-libs --w
ithout-x --enable-libgcj --disable-java-awt --with-system-zlib
--enable-interpreter --disable-libgcj-debug --enable-thre
ads=posix --enable-java-gc=boehm --disable-win32-registry
--enable-sjlj-exceptions --enable-hash-synchronization --enabl
e-libstdcxx-debug
Thread model: posix
gcc version 3.4.4 (cygming special, gdc 0.12, using dmd 0.125)
...I compiled all package libraries successfully ('make -i') except Zoltan.
Most warnings were regarding ISO C90 compatibility, implicit declarations,
xyz will be initialized after abc, ISO C compatibility. I hope that this is
expected in spite of supplying -ansi -pedantic. The actual errors are
http://pastebin.com/m26cf085c
Whenever I then try to build the tests or examples too many errors are
reported. At some point I interrupt via Ctrl-C.
Tests via 'make -i tests':
http://pastebin.com/m19aeaac3
Examples via 'make -i examples':
http://pastebin.com/m205199a8
To me, Zoltan is not of primary interest but as building the examples and
tests fails, too, I expect that the build is corrupted, too.
Even though I only have gcc, g++, g77 in exactly the same version in the
present Cygwin installation (no 4.x versions or gfortran installed) I tried
the --disable-fortran flag suggested earlier.
In this case I do get a warning from teuchos/configure and others but that
seems to be related to Fortran and thus shouldn't be a problem.
checking for dgecon_... no
checking for dgecon_ in -llapack... yes
checking how to get verbose linking output from ... configure: WARNING:
compilation failed
checking for Fortran 77 libraries of ...
checking for template-specific object files to be linked... none
In teuchos/config.log:
configure:16399: checking how to get verbose linking output from
configure:16415: -c -g -O0 conftest.f >&5
../../../packages/teuchos/configure: line 16416: -c: command not found
configure:16421: $? = 127
configure: failed program was:
| program main
|
| end
configure:16502: WARNING: compilation failed
configure:16509: result:
configure:16511: checking for Fortran 77 libraries of
configure:16534: -o conftest.exe -g -O0 conftest.f
../../../packages/teuchos/configure: line 16535: -o: command not found
configure:16708: result:
configure:16740: checking for template-specific object files to be linked
configure:16743: result: none
I ran this one (without Fortran code) with 'make' only. I got the same error
message on Zoltan as before and stopped.
I also tried downgrading to gcc 3.3.3-3. The error message was exactly the
same as using 3.4.4-3.
This is very weird. Is it possible that one of the tools used in the
configure / make scripts behaves differently in the latest Cygwin version?
I have lots of software on my computer that shows up in the environment
variables under Cygwin (Services for Unix, Open Watcom installed by Maple,
VS 8 etc.) that could potentially conflict with Cygwin/Gcc. Still, I
reproduced the same error message on two other Windows computers (even one
outside of our facility, DLR). So I expect that the source of the trouble is
not the additional software. Just for fun I set PATH to only
/usr/local/bin:/usr/bin:/bin:/usr/X11R6/bin:/usr/bin:/usr/lib/lapack but
nothing changed either. Once again, I got the strdup() undeclared error in
some Zoltan code.
BTW, for each 'configure' and 'make' run I have always been deleting the
whole build tree to avoid extra trouble.
Do you learn anything from all this?
Thanks again for your time and input,
Best regards,
Michael
On Tue, Jan 13, 2009 at 9:33 PM, Bartlett, Roscoe A <rabartl at sandia.gov>wrote:
> Michael,
>
> This is very troubling. I have never seen errors like this.
>
> If you build with 'make -i everything' what packages build and which ones
> do not?
>
> Cheers,
>
> - Ross
>
>
> ------------------------------
> *From:* Michael Sielemann [mailto:michael.sielemann at gmail.com]
> *Sent:* Tuesday, January 13, 2009 7:47 AM
> *To:* Trilinos-Users at software.sandia.gov; Bartlett, Roscoe A
> *Subject:* Re: [Trilinos-Users] Cygwin Build Problems
>
>
>
>
> Dear Ross,
> By now I did two successful builds on Linux (one on OpenSuse 10.2 and one
> on a Centos 5.2 node). But none on Cygwin. I tested on my laptop, a second
> laptop and my home computer, which has a pretty fresh Windows XP
> installation. They all failed. I made Cygwin installations as user and as
> admin, with all packages in section "devel" selected and with a hand-picked
> set only. I tried Trilinos versions 9.0.2 and 8.0.7.
>
> I understand that you did not have any trouble with this so I would like to
> ask you whether I am missing out on a crucial step. This is what I do:
> 1. Install latest Cygwin with
> - All items in the devel section enabled ---or--- adding several items
> by hand to the default such that the complete set ends up as
> autoconf wrapper scripts, autoconf 2.1, automake 1.5, binutils,
> cmake, doxygen, e2fsprogs, gcc-core, gcc-g++, gcc-g77, gcc-mingw-core,
> gcc-mingw-g++, gcc-mingw-g77, gettext, gtk2-x11, gtk-x11-runtime,
> libfpx-devel, libfreetype2, libgdbm-devel, libhdf5-devel, libhdf5-runtime,
> libiconv, lib-jasper-devel, liblcms-devel, libwmf-devel!!, libxml2,
> libxml-devel, make, mingw-runtime, pango, pango-runtime
> - the LAPACK package from the math section (includes BLAS)
> 2. In the Cygwin Bash Console, do the following (this one is from my home
> computer)
>
> Admin at Laptop ~
> $ cd /cygdrive/c/tmp/
>
> Admin at Laptop /cygdrive/c/tmp
> $ gunzip trilinos-9.0.2.tar.gz
>
> Admin at Laptop /cygdrive/c/tmp
> $ tar xf trilinos-9.0.2.tar
>
> Admin at Laptop /cygdrive/c/tmp
> $ cd trilinos-9.0.2
>
> Admin at Laptop /cygdrive/c/tmp/trilinos-9.0.2
> $ mkdir cygwin_serial
>
> Admin at Laptop /cygdrive/c/tmp/trilinos-9.0.2
> $ cd cygwin_serial/
>
> Admin at Laptop /cygdrive/c/tmp/trilinos-9.0.2/cygwin_serial
> $ bash do-configure.sh
> rm: cannot remove `config.cache': No such file or directory
>
> (...)
>
> $ make everything
>
> (...)
>
> cc -DHAVE_CONFIG_H -I. -I../../src/include
> -I../../../../../packages/zoltan/src/
> driver
> -I/cygdrive/c/tmp/trilinos-9.0.2/cygwin_serial/packages/zoltan/src/include
> -I/cygdrive/c/tmp/trilinos-9.0.2/packages/zoltan/src/include
> -I/cygdrive/c/tmp/
> trilinos-9.0.2/packages/zoltan/siMPI/pyMPI/siMPI
> -I../../../../../packages/zolta
> n/src/driver/ -I../../../../../packages/zoltan/src/ch/ -g -O0 -ansi
> -pedantic
> -Wall -fexceptions -MT zCPPdrive-ch_input_read.o -MD -MP -MF
> .deps/zCPPdrive-ch_
> input_read.Tpo -c -o zCPPdrive-ch_input_read.o `test -f
> '../../../../../packages
> /zoltan/src/ch/ch_input_read.c' || echo
> '../../../../../packages/zoltan/src/driv
> er/'`../../../../../packages/zoltan/src/ch/ch_input_read.c
> mv -f .deps/zCPPdrive-ch_input_read.Tpo .deps/zCPPdrive-ch_input_read.Po
> CC -DHAVE_CONFIG_H -I. -I../../src/include
> -I../../../../../packages/zoltan/src/
> driver
> -I/cygdrive/c/tmp/trilinos-9.0.2/cygwin_serial/packages/zoltan/src/include
> -I/cygdrive/c/tmp/trilinos-9.0.2/packages/zoltan/src/include
> -I/cygdrive/c/tmp/
> trilinos-9.0.2/packages/zoltan/siMPI/pyMPI/siMPI
> -I../../../../../packages/zolta
> n/src/driver/ -I../../../../../packages/zoltan/src/ch/ -g -O0 -ansi
> -pedantic
> -Wall -fexceptions -MT zCPPdrive-dr_mainCPP.o -MD -MP -MF
> .deps/zCPPdrive-dr_mai
> nCPP.Tpo -c -o zCPPdrive-dr_mainCPP.o `test -f
> '../../../../../packages/zoltan/s
> rc/driver/dr_mainCPP.cpp' || echo
> '../../../../../packages/zoltan/src/driver/'`.
> ./../../../../packages/zoltan/src/driver/dr_mainCPP.cpp
> In file included from
> ../../../../../packages/zoltan/src/driver/dr_loadbal_const
> .h:22,
> from
> ../../../../../packages/zoltan/src/driver/dr_mainCPP.cpp:2
> 7:
> /cygdrive/c/tmp/trilinos-9.0.2/packages/zoltan/src/include/zoltan_cpp.h: In
> memb
> er function `int Zoltan::Generate_Files(std::string&, const int&, const
> int&, co
> nst int&, const int&)':
> */cygdrive/c/tmp/trilinos-9.0.2/packages/zoltan/src/include/zoltan_cpp.h:606:
> err
> or: `strdup' undeclared (first use this function)*
> /cygdrive/c/tmp/trilinos-9.0.2/packages/zoltan/src/include/zoltan_cpp.h:606:
> err
> or: (Each undeclared identifier is reported only once for each function it
> appea
> $
> make[5]: *** [zCPPdrive-dr_mainCPP.o] Error 1
> make[5]: Leaving directory
> `/cygdrive/c/tmp/trilinos-9.0.2/cygwin_serial/packages/
> zoltan/src/driver'
> make[4]: *** [all-recursive] Error 1
> make[4]: Leaving directory
> `/cygdrive/c/tmp/trilinos-9.0.2/cygwin_serial/packages/
> zoltan/src'
> make[3]: *** [all-recursive] Error 1
> make[3]: Leaving directory
> `/cygdrive/c/tmp/trilinos-9.0.2/cygwin_serial/packages/
> zoltan'
> make[2]: *** [all-recursive] Error 1
> make[2]: Leaving directory
> `/cygdrive/c/tmp/trilinos-9.0.2/cygwin_serial/packages'
>
> make[1]: *** [everything] Error 2
> make[1]: Leaving directory
> `/cygdrive/c/tmp/trilinos-9.0.2/cygwin_serial/packages'
>
> make: *** [everything] Error 2
>
>
>
> Configure almost never complains about anything but during 'make' or 'make
> everything' the build process fails. GCC, G77, G++ are 3.4.4 as on your
> Cygwin, too.
>
> siel_mi at rmlap069 /cygdrive/f/C_Sandbox/tribox/trilinos-9.0.2/Cygwin_serial
> $ gcc --version
> gcc (GCC) 3.4.4 (cygming special, gdc 0.12, using dmd 0.125)
> Copyright (C) 2004 Free Software Foundation, Inc.
> This is free software; see the source for copying conditions. There is NO
> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
>
>
> siel_mi at rmlap069 /cygdrive/f/C_Sandbox/tribox/trilinos-9.0.2/Cygwin_serial
> $ g++ --version
> g++ (GCC) 3.4.4 (cygming special, gdc 0.12, using dmd 0.125)
> Copyright (C) 2004 Free Software Foundation, Inc.
> This is free software; see the source for copying conditions. There is NO
> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
>
>
> siel_mi at rmlap069 /cygdrive/f/C_Sandbox/tribox/trilinos-9.0.2/Cygwin_serial
> $ g77 --version
> GNU Fortran (GCC) 3.4.4 (cygming special, gdc 0.12, using dmd 0.125)
> Copyright (C) 2004 Free Software Foundation, Inc.
>
> GNU Fortran comes with NO WARRANTY, to the extent permitted by law.
> You may redistribute copies of GNU Fortran
> under the terms of the GNU General Public License.
> For more information about these matters, see the file named COPYING
> or type the command `info -f g77 Copying'.
>
> Below, I am sending you the do-configure script I am using, which is
> essentially yours after removing some --enable-xyz's for packages that I
> think are not included in the general release.
>
> I also tried several modifications. This one is my favorite error message
>
>
> /cygdrive/f/C_Sandbox/tribox/trilinos-9.0.2/Cygwin_serial/packages/teuchos/example/BLAS/../../../../../packages/teuchos/
> example/BLAS/cxx_main.cpp:18: undefined reference to `std::cout'
>
> As you mentioned that you never had any trouble I am wondering what I am
> doing wrong repeatedly. And I hope that you have some hints for me.
>
> Thanks in advance, and best regards MICHAEL
>
>
>
> -----8<---------------------------------------------------------------------------------------------------------
>
>
> #!/bin/sh
> rm config.cache
> ../configure --prefix=/cygdrive/f/C_Sandbox/tribox/trilinoslib \
> --cache-file=config.cache \
> --with-install="/usr/bin/install -p" \
> CXXFLAGS="-g -O0 -ansi -pedantic -Wall -fexceptions" \
> CFLAGS="-g -O0 -ansi -pedantic -Wall -fexceptions" \
> FFLAGS="-g -O0 " \
> --enable-export-makefiles \
> --with-gnumake \
> --disable-default-packages \
> --enable-teuchos --enable-teuchos-extended --enable-teuchos-debug
> --enable-teuchos-abc --disable-teuchos-blasfloat \
> --enable-thyra \
> --enable-epetra --enable-epetra-abc \
> --enable-triutils --disable-triutils-tests --disable-triutils-examples \
> --enable-epetraext \
> --enable-amesos \
> --enable-aztecoo \
> --enable-belos \
> --enable-ifpack \
> --enable-ml \
> --enable-nox --enable-nox-epetra --enable-nox-epetraext --enable-nox-thyra
> --enable-nox-thyra-tests --enable-nox-tests \
> --enable-loca \
> --enable-stratimikos \
> --enable-rythmos \
> --enable-moocho \
> --enable-sacado \
> --enable-meros \
> --enable-new_package \
> --enable-galeri \
> --enable-isorropia \
> --enable-moertel \
> --enable-anasazi \
> --enable-didasko
>
>
>
>
>
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