Building OPENCMISS Iron after setting up arch path raises problem with gdcm

[vraj004]

I tried to compile opencmiss iron (ubuntu 18.04, gcc-9, gfortran 9) by first setting up arch path:

1. cd setup-build

2. cmake -DOPENCMISS_ROOT=../opencmiss -DOPENCMISS_LIBRARIES=iron
   .-DOPENCMISS_PERFORM_INITIAL_BUILD=False ./setup

3. make VERBOSE=1

4. cd ../../build/manage/release

cmake .

5. make create_config

6. make build_config

The compiler fails at OC_GDCM:

Scanning dependencies of target OC_GDCM-ABI
[ 15%] Creating directories for 'OC_GDCM-ABI'
[ 17%] No download step for 'OC_GDCM-ABI'
[ 17%] No patch step for 'OC_GDCM-ABI'
[ 17%] No update step for 'OC_GDCM-ABI'
[ 17%] Performing configure step for 'OC_GDCM-ABI'
-- OC_GDCM-ABI configure command succeeded. See also /home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/build/x86_64_linux/gnu-C9.0-gnu-F9.0/no_mpi/dependencies/gdcm-abi/release/extproj/stamp/OC_GDCM-ABI-configure-*.log
[ 17%] Performing build step for 'OC_GDCM-ABI'
CMake Error at extproj/stamp/OC_GDCM-ABI-build-Release.cmake:49 (message):
Command failed: 2

'/usr/local/bin/cmake' '--build' '/home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/build/x86_64_linux/gnu-C9.0-gnu-F9.0/no_mpi/dependencies/gdcm-abi/release' '--' '-j8'

See also

/home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/build/x86_64_linux/gnu-C9.0-gnu-F9.0/no_mpi/dependencies/gdcm-abi/release/extproj/stamp/OC_GDCM-ABI-build-*.log

CMakeFiles/OC_GDCM-ABI.dir/build.make:114: recipe for target '/home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/build/x86_64_linux/gnu-C9.0-gnu-F9.0/no_mpi/dependencies/gdcm-abi/release/extproj/stamp/OC_GDCM-ABI-build' failed
make[6]: *** [/home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/build/x86_64_linux/gnu-C9.0-gnu-F9.0/no_mpi/dependencies/gdcm-abi/release/extproj/stamp/OC_GDCM-ABI-build] Error 1
CMakeFiles/Makefile2:3104: recipe for target 'CMakeFiles/OC_GDCM-ABI.dir/all' failed

[vraj004]

Further examination of the compiler error inside the gdcm-abi folder:
[ 7%] Built target gdcmCommon
[ 7%] Building CXX object Wrapping/C/CMakeFiles/gdcmCWRAPPER.dir/gdcmCReader.cxx.o
In file included from /home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/gdcm-abi/Source/DataStructureAndEncodingDefinition/gdcmDataSet.h:21,
from /home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/gdcm-abi/Source/DataStructureAndEncodingDefinition/gdcmFile.h:19,
from /home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/gdcm-abi/Source/DataStructureAndEncodingDefinition/gdcmReader.h:19,
from /home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/gdcm-abi/Wrapping/C/gdcmCReader.cxx:12:
/home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/gdcm-abi/Source/DataStructureAndEncodingDefinition/gdcmElement.h:606:26: error: declaration of ‘class gdcm::Element<4096, TVM>’ ambiguates earlier template instantiation for ‘class gdcm::Element<4096, 218367>’ [-fpermissive]
606 | template class Element<VR::OB, TVM>;
| ^~~~~~~~~~~~~~~~~~~~
/home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/gdcm-abi/Source/DataStructureAndEncodingDefinition/gdcmElement.h:612:26: error: declaration of ‘class gdcm::Element<16384, TVM>’ ambiguates earlier template instantiation for ‘class gdcm::Element<16384, 218367>’ [-fpermissive]
612 | template class Element<VR::OW, TVM>;
| ^~~~~~~~~~~~~~~~~~~~
/home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/gdcm-abi/Source/DataStructureAndEncodingDefinition/gdcmElement.h:612:26: error: declaration of ‘class gdcm::Element<16384, TVM>’ ambiguates earlier template instantiation for ‘class gdcm::Element<4096, 218367>’ [-fpermissive]
Wrapping/C/CMakeFiles/gdcmCWRAPPER.dir/build.make:62: recipe for target 'Wrapping/C/CMakeFiles/gdcmCWRAPPER.dir/gdcmCReader.cxx.o' failed
make[2]: *** [Wrapping/C/CMakeFiles/gdcmCWRAPPER.dir/gdcmCReader.cxx.o] Error 1
CMakeFiles/Makefile2:113: recipe for target 'Wrapping/C/CMakeFiles/gdcmCWRAPPER.dir/all' failed
make[1]: *** [Wrapping/C/CMakeFiles/gdcmCWRAPPER.dir/all] Error 2
M

[chrispbradley]

Hi Vijay,
yes, whilst gcc-9 fixes the internal compiler fault it brings in additional problems in that some of the external libraries do not build with it because they are too old. GDCM above is not required by iron so you can turn it off. Indeed, go to your configs directory and edit OpenCMISSLocalConfig.cmake and set

set(OC_USE_CLANG OFF)
set(OC_USE_CSIM OFF)
set(OC_USE_LLVM OFF)
set(OC_USE_ZINC OFF)
set(CELLML_WITH_CSIM NO)

It should then build with gcc-9

[vraj004]

Why does this error not pop up when setting up opencmiss iron with the default settings - without setting the arch paths?

[vraj004]

After setting the corresponding flags off as suggested (in OpenCMISSLocalConfig.cmake) I now get compilation error with OC_SCOTCH:

lex.yy.c: In function ‘scotchyy_init_buffer’:
lex.yy.c:1566:48: warning: implicit declaration of function ‘fileno’ [-Wimplicit-function-declaration]
In file included from /home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/scotch/src/libscotch/bdgraph.c:57:
/home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/scotch/src/libscotch/common.h:194:21: fatal error: mpi.h: No such file or directory
194 | #include <mpi.h>
| ^~~~~~~
compilation terminated.
make[9]: *** [src/libscotch/libptscotch/CMakeFiles/ptscotch.dir/__/bdgraph.c.o] Error 1
make[8]: *** [src/libscotch/libptscotch/CMakeFiles/ptscotch.dir/all] Error 2
make[8]: *** Waiting for unfinished jobs....
make[7]: *** [all] Error 2

[sgenie68]

What MPI do you use there? Gene

…

-- Scientific Software Specialist Auckland Bioengineering Institute The University of Auckland e: g.soudlenkov@auckland.ac.nz p: +64 9 3737599 ext 89834 c: +64 21 840 825 w: https://www.auckland.ac.nz/en/abi.html

On 24/11/19 18:28, Vijay Rajagopal wrote: After setting the corresponding flags off as suggested (in OpenCMISSLocalConfig.cmake) I now get compilation error with OC_SCOTCH: lex.yy.c: In function ‘scotchyy_init_buffer’: lex.yy.c:1566:48: warning: implicit declaration of function ‘fileno’ [-Wimplicit-function-declaration] In file included from /home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/scotch/src/libscotch/bdgraph.c:57: /home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/scotch/src/libscotch/common.h:194:21: fatal error: mpi.h: No such file or directory 194 | #include <mpi.h> | ^~~~~~~ compilation terminated. make[9]: *** [src/libscotch/libptscotch/CMakeFiles/ptscotch.dir/__/bdgraph.c.o] Error 1 make[8]: *** [src/libscotch/libptscotch/CMakeFiles/ptscotch.dir/all] Error 2 make[8]: *** Waiting for unfinished jobs.... make[7]: *** [all] Error 2 — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#187?email_source=notifications&email_token=AAGJIDRU5UONSEPXW3LQQEDQVIGHZA5CNFSM4JQ5FI52YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOEFAEEIY#issuecomment-557859363>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAGJIDTT4DO5U2MFRHFGISDQVIGHZANCNFSM4JQ5FI5Q>.

[vraj004]

Mpich Get Outlook for Android<https://aka.ms/ghei36>

________________________________ From: sgenie68 <notifications@github.com> Sent: Sunday, November 24, 2019 5:03:12 PM To: OpenCMISS/iron <iron@noreply.github.com> Cc: Vijay Rajagopal <vijay.rajagopal@unimelb.edu.au>; Author <author@noreply.github.com> Subject: Re: [OpenCMISS/iron] Building OPENCMISS Iron after setting up arch path raises problem with gdcm (#187) What MPI do you use there? Gene

-- Scientific Software Specialist Auckland Bioengineering Institute The University of Auckland e: g.soudlenkov@auckland.ac.nz p: +64 9 3737599 ext 89834 c: +64 21 840 825 w: https://www.auckland.ac.nz/en/abi.html<https://www.auckland.ac.nz/en/abi.html>

On 24/11/19 18:28, Vijay Rajagopal wrote: After setting the corresponding flags off as suggested (in OpenCMISSLocalConfig.cmake) I now get compilation error with OC_SCOTCH: lex.yy.c: In function ‘scotchyy_init_buffer’: lex.yy.c:1566:48: warning: implicit declaration of function ‘fileno’ [-Wimplicit-function-declaration] In file included from /home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/scotch/src/libscotch/bdgraph.c:57: /home/unimelb.edu.au/vrajagopal/applications/opencmiss_install/opencmiss/src/dependencies/scotch/src/libscotch/common.h:194:21: fatal error: mpi.h: No such file or directory 194 | #include <mpi.h> | ^~~~~~~ compilation terminated. make[9]: *** [src/libscotch/libptscotch/CMakeFiles/ptscotch.dir/__/bdgraph.c.o] Error 1 make[8]: *** [src/libscotch/libptscotch/CMakeFiles/ptscotch.dir/all] Error 2 make[8]: *** Waiting for unfinished jobs.... make[7]: *** [all] Error 2 — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#187?email_source=notifications&email_token=AAGJIDRU5UONSEPXW3LQQEDQVIGHZA5CNFSM4JQ5FI52YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOEFAEEIY#issuecomment-557859363>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAGJIDTT4DO5U2MFRHFGISDQVIGHZANCNFSM4JQ5FI5Q>.

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[chrispbradley]

Why does this error not pop up when setting up opencmiss iron with the default settings - without setting the arch paths?

Hi Vijay, I'll speculate that when you do the setup you specify iron only libraries and therefore it doesn't build zinc and therefore the zinc dependencies.

[chrispbradley]

Hi Vijay,
It can't find mpich for some reason. What do you get when you do a which mpiexec? mpif90 --version? mpicc --version? Also have you installed libmpich-dev?

[vraj004]

Hi Chris I have installed libmpich-dev. I get gcc-9 when checking version of mpicc and mpif90. I get the following error for mpiexec: [mpiexec@4000v-udp14-l] set_default_values (ui/mpich/utils.c:1529): no executable provided [mpiexec@4000v-udp14-l] HYD_uii_mpx_get_parameters (ui/mpich/utils.c:1740): setting default values failed [mpiexec@4000v-udp14-l] main (ui/mpich/mpiexec.c:149): error parsing parameters Vijay Rajagopal | Senior Lecturer Department of Biomedical Engineering | Melbourne School of Engineering Building 261, 197-203 Bouverie Street The University of Melbourne, Victoria 3010 Australia T: +61 3 834 41281 E: vijay.rajagopal@unimelb.edu.au<mailto:vijay.rajagopal@unimelb.edu.au> Cell Structure and Mechanobiology Group<https://biomedical.eng.unimelb.edu.au/cell-structure-mechanobiology/>| twitter.com/vj_rajagopal<http://twitter.com/vj_rajagopal> From: Chris Bradley <notifications@github.com> Reply to: OpenCMISS/iron <reply@reply.github.com> Date: Sunday, 24 November 2019 at 6:55 pm To: OpenCMISS/iron <iron@noreply.github.com> Cc: Vijay Rajagopal <vijay.rajagopal@unimelb.edu.au>, Author <author@noreply.github.com> Subject: Re: [OpenCMISS/iron] Building OPENCMISS Iron after setting up arch path raises problem with gdcm (#187) Hi Vijay, It can't find mpich for some reason. What do you get when you do a which mpiexec? mpif90 --version? mpicc --version? Also have you installed libmpich-dev? — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub<#187?email_source=notifications&email_token=AAGX4ZP4P2ELAAIZXXJSCBTQVIXMXA5CNFSM4JQ5FI52YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOEFAFYSY#issuecomment-557866059>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AAGX4ZPVANIOPNABYHXAFODQVIXMXANCNFSM4JQ5FI5Q>.

[chrispbradley]

Hi Vijay,
is that output for

which mpiexec

or for when you run mpiexec? Something is not right. Can you send the output for env | grep PATH?

[sgenie68]

The problem might be related to the conflicts between anaconda-installed version of mpich and the system-configured one Gene

…

-- Scientific Software Specialist Auckland Bioengineering Institute The University of Auckland e: g.soudlenkov@auckland.ac.nz p: +64 9 3737599 ext 89834 c: +64 21 840 825 w: https://www.auckland.ac.nz/en/abi.html

On 24/11/19 22:28, Chris Bradley wrote: Hi Vijay, is that output for which mpiexec or for when you run mpiexec? Something is not right. Can you send the output for env | grep PATH? — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#187?email_source=notifications&email_token=AAGJIDWQVVZBYCYFFNQ5QDTQVJCNBA5CNFSM4JQ5FI52YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOEFAHFKQ#issuecomment-557871786>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAGJIDU34U2UCCBALLOLKXLQVJCNBANCNFSM4JQ5FI5Q>.

[vraj004]

HI Gene, I am now running a linux virtual machine without anaconda. So this is an issue on linux ubuntu 18.04 Vijay Rajagopal | Senior Lecturer Department of Biomedical Engineering | Melbourne School of Engineering Building 261, 197-203 Bouverie Street The University of Melbourne, Victoria 3010 Australia T: +61 3 834 41281 E: vijay.rajagopal@unimelb.edu.au<mailto:vijay.rajagopal@unimelb.edu.au> Cell Structure and Mechanobiology Group<https://biomedical.eng.unimelb.edu.au/cell-structure-mechanobiology/>| twitter.com/vj_rajagopal<http://twitter.com/vj_rajagopal> From: sgenie68 <notifications@github.com> Reply to: OpenCMISS/iron <reply@reply.github.com> Date: Sunday, 24 November 2019 at 8:35 pm To: OpenCMISS/iron <iron@noreply.github.com> Cc: Vijay Rajagopal <vijay.rajagopal@unimelb.edu.au>, Author <author@noreply.github.com> Subject: Re: [OpenCMISS/iron] Building OPENCMISS Iron after setting up arch path raises problem with gdcm (#187) The problem might be related to the conflicts between anaconda-installed version of mpich and the system-configured one Gene

-- Scientific Software Specialist Auckland Bioengineering Institute The University of Auckland e: g.soudlenkov@auckland.ac.nz p: +64 9 3737599 ext 89834 c: +64 21 840 825 w: https://www.auckland.ac.nz/en/abi.html<https://www.auckland.ac.nz/en/abi.html>

On 24/11/19 22:28, Chris Bradley wrote: Hi Vijay, is that output for which mpiexec or for when you run mpiexec? Something is not right. Can you send the output for env | grep PATH? — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#187?email_source=notifications&email_token=AAGJIDWQVVZBYCYFFNQ5QDTQVJCNBA5CNFSM4JQ5FI52YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOEFAHFKQ#issuecomment-557871786>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAGJIDU34U2UCCBALLOLKXLQVJCNBANCNFSM4JQ5FI5Q>.

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[vraj004]

HI Chris, I did env | grep PATH and this is what I get: PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin The previous output was for running mpiexec. I ran mpiexec--version and this is what I get: HYDRA build details: Version: 3.3a2 Release Date: Sun Nov 13 09:12:11 MST 2016 CC: gcc -Wl,-Bsymbolic-functions -Wl,-z,relro CXX: g++ -Wl,-Bsymbolic-functions -Wl,-z,relro F77: gfortran -Wl,-Bsymbolic-functions -Wl,-z,relro F90: gfortran -Wl,-Bsymbolic-functions -Wl,-z,relro Configure options: '--disable-option-checking' '--prefix=/usr' '--build=x86_64-linux-gnu' '--includedir=${prefix}/include' '--mandir=${prefix}/share/man' '--infodir=${prefix}/share/info' '--sysconfdir=/etc' '--localstatedir=/var' '--disable-silent-rules' '--libdir=${prefix}/lib/x86_64-linux-gnu' '--libexecdir=${prefix}/lib/x86_64-linux-gnu' '--disable-maintainer-mode' '--disable-dependency-tracking' '--with-libfabric' '--enable-shared' '--enable-fortran=all' '--disable-rpath' '--disable-wrapper-rpath' '--sysconfdir=/etc/mpich' '--libdir=/usr/lib/x86_64-linux-gnu' '--includedir=/usr/include/mpich' '--docdir=/usr/share/doc/mpich' '--with-hwloc-prefix=system' '--enable-checkpointing' '--with-hydra-ckpointlib=blcr' 'CPPFLAGS= -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/mpich-O9at2o/mpich-3.3~a2/src/mpl/include -I/build/mpich-O9at2o/mpich-3.3~a2/src/mpl/include -I/build/mpich-O9at2o/mpich-3.3~a2/src/openpa/src -I/build/mpich-O9at2o/mpich-3.3~a2/src/openpa/src -D_REENTRANT -I/build/mpich-O9at2o/mpich-3.3~a2/src/mpi/romio/include' 'CFLAGS= -g -O2 -fdebug-prefix-map=/build/mpich-O9at2o/mpich-3.3~a2=. -fstack-protector-strong -Wformat -Werror=format-security -O2' 'CXXFLAGS= -g -O2 -fdebug-prefix-map=/build/mpich-O9at2o/mpich-3.3~a2=. -fstack-protector-strong -Wformat -Werror=format-security -O2' 'FFLAGS= -g -O2 -fdebug-prefix-map=/build/mpich-O9at2o/mpich-3.3~a2=. -fstack-protector-strong -O2' 'FCFLAGS= -g -O2 -fdebug-prefix-map=/build/mpich-O9at2o/mpich-3.3~a2=. -fstack-protector-strong -O2' 'build_alias=x86_64-linux-gnu' 'MPICHLIB_CFLAGS=-g -O2 -fdebug-prefix-map=/build/mpich-O9at2o/mpich-3.3~a2=. -fstack-protector-strong -Wformat -Werror=format-security' 'MPICHLIB_CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2' 'MPICHLIB_CXXFLAGS=-g -O2 -fdebug-prefix-map=/build/mpich-O9at2o/mpich-3.3~a2=. -fstack-protector-strong -Wformat -Werror=format-security' 'MPICHLIB_FFLAGS=-g -O2 -fdebug-prefix-map=/build/mpich-O9at2o/mpich-3.3~a2=. -fstack-protector-strong' 'MPICHLIB_FCFLAGS=-g -O2 -fdebug-prefix-map=/build/mpich-O9at2o/mpich-3.3~a2=. -fstack-protector-strong' 'LDFLAGS=-Wl,-Bsymbolic-functions -Wl,-z,relro' 'FC=gfortran' 'F77=gfortran' 'MPILIBNAME=mpich' '--cache-file=/dev/null' '--srcdir=.' 'CC=gcc' 'LIBS=' 'MPLLIBNAME=mpl' Process Manager: pmi Launchers available: ssh rsh fork slurm ll lsf sge manual persist Topology libraries available: hwloc Resource management kernels available: user slurm ll lsf sge pbs cobalt Checkpointing libraries available: blcr Demux engines available: poll select Vijay Rajagopal | Senior Lecturer Department of Biomedical Engineering | Melbourne School of Engineering Building 261, 197-203 Bouverie Street The University of Melbourne, Victoria 3010 Australia T: +61 3 834 41281 E: vijay.rajagopal@unimelb.edu.au<mailto:vijay.rajagopal@unimelb.edu.au> Cell Structure and Mechanobiology Group<https://biomedical.eng.unimelb.edu.au/cell-structure-mechanobiology/>| twitter.com/vj_rajagopal<http://twitter.com/vj_rajagopal> From: Chris Bradley <notifications@github.com> Reply to: OpenCMISS/iron <reply@reply.github.com> Date: Sunday, 24 November 2019 at 8:28 pm To: OpenCMISS/iron <iron@noreply.github.com> Cc: Vijay Rajagopal <vijay.rajagopal@unimelb.edu.au>, Author <author@noreply.github.com> Subject: Re: [OpenCMISS/iron] Building OPENCMISS Iron after setting up arch path raises problem with gdcm (#187) Hi Vijay, is that output for which mpiexec or for when you run mpiexec? Something is not right. Can you send the output for env | grep PATH? — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub<#187?email_source=notifications&email_token=AAGX4ZIED5HX4LMO52VUM3DQVJCNBA5CNFSM4JQ5FI52YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOEFAHFKQ#issuecomment-557871786>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AAGX4ZJDAYUMDA3FIFZQAHTQVJCNBANCNFSM4JQ5FI5Q>.

[sgenie68]

Hi, Vijay Could you give me the command line you used when you ran mpiexec? Cheers, Gene

…

-- Scientific Software Specialist Auckland Bioengineering Institute The University of Auckland e: g.soudlenkov@auckland.ac.nz p: +64 9 3737599 ext 89834 c: +64 21 840 825 w: https://www.auckland.ac.nz/en/abi.html

On 24/11/19 21:45, Vijay Rajagopal wrote: HYD_uii_mpx_get_parameters (ui/mpich/utils.c:1740): setting default values failed

[vraj004]

I simply typed: mpiexec Best wishes Vijay Rajagopal | Senior Lecturer Department of Biomedical Engineering | Melbourne School of Engineering Building 261, 197-203 Bouverie Street The University of Melbourne, Victoria 3010 Australia T: +61 3 834 41281 E: vijay.rajagopal@unimelb.edu.au<mailto:vijay.rajagopal@unimelb.edu.au> Cell Structure and Mechanobiology Group<https://biomedical.eng.unimelb.edu.au/cell-structure-mechanobiology/>| twitter.com/vj_rajagopal<http://twitter.com/vj_rajagopal> From: sgenie68 <notifications@github.com> Reply to: OpenCMISS/iron <reply@reply.github.com> Date: Monday, 25 November 2019 at 8:47 am To: OpenCMISS/iron <iron@noreply.github.com> Cc: Vijay Rajagopal <vijay.rajagopal@unimelb.edu.au>, Author <author@noreply.github.com> Subject: Re: [OpenCMISS/iron] Building OPENCMISS Iron after setting up arch path raises problem with gdcm (#187) Hi, Vijay Could you give me the command line you used when you ran mpiexec? Cheers, Gene

-- Scientific Software Specialist Auckland Bioengineering Institute The University of Auckland e: g.soudlenkov@auckland.ac.nz p: +64 9 3737599 ext 89834 c: +64 21 840 825 w: https://www.auckland.ac.nz/en/abi.html<https://www.auckland.ac.nz/en/abi.html>

On 24/11/19 21:45, Vijay Rajagopal wrote: HYD_uii_mpx_get_parameters (ui/mpich/utils.c:1740): setting default values failed

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