Error in installation

[physixfan]

Hi,

I used the following command to install adios-1.11.0:

cd adios
mkdir build
cd build
../configure -prefix=/turquoise/users/xfan/local CFLAGS=-fPIC
make clean
make 
make install

But when I execute "make", I get the following error:

In file included from ../../../src/public/adios_mpi.h:13,
from ../../../src/core/adios_transport_hooks.h:15,
from ../../../utils/bp2ncd/bp2ncd.c:14:
../../../src/public/mpidummy.h:27: error: two or more data types in declaration specifiers
../../../src/public/mpidummy.h:27: warning: useless type name in empty declaration
../../../src/public/mpidummy.h:30: error: two or more data types in declaration specifiers
../../../src/public/mpidummy.h:30: warning: useless type name in empty declaration
In file included from ../../../src/public/adios_mpi.h:13,
from ../../../src/core/adios_transport_hooks.h:15,
from ../../../utils/bp2ncd/bp2ncd.c:14:
../../../src/public/mpidummy.h:53:1: warning: "MPI_COMM_WORLD" redefined
In file included from ../../../utils/bp2ncd/bp2ncd.c:12:
/usr/include/netcdf.h:44:1: warning: this is the location of the previous definition
make[3]: *** [bp2ncd-bp2ncd.o] Error 1
make[3]: Leaving directory '/turquoise/users/xfan/adios-1.11.0/build/utils/bp2ncd'
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory '/turquoise/users/xfan/adios-1.11.0/build/utils'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory '/turquoise/users/xfan/adios-1.11.0/build'
make: *** [all] Error 2

What should I do to make correctly?

[pnorbert]

Please note that bp2ncd is a sequential code. You probably point to a parallel netcdf installation. The --with-netcdf option needs a sequential build, however, the bp2ncd tool probably does not work anymore, so if you don't need it, just use --without-netcdf. For having the parallel NC4 transport to write out NC4 files, you need to use the --with-nc4par option at configure.

…

On Fri, May 5, 2017 at 3:39 PM, physixfan ***@***.***> wrote: Hi, I used the following command to install adios-1.10.0 (and also tried adios-1.11.0): cd adios mkdir build cd build ../configure -prefix=/turquoise/users/xfan/local CFLAGS=-fPIC make clean make make install But when I execute "make", I get the following error: In file included from ../../../src/public/adios_mpi.h:13, from ../../../src/core/adios_transport_hooks.h:15, from ../../../utils/bp2ncd/bp2ncd.c:14: ../../../src/public/mpidummy.h:27: error: two or more data types in declaration specifiers ../../../src/public/mpidummy.h:27: warning: useless type name in empty declaration ../../../src/public/mpidummy.h:30: error: two or more data types in declaration specifiers ../../../src/public/mpidummy.h:30: warning: useless type name in empty declaration In file included from ../../../src/public/adios_mpi.h:13, from ../../../src/core/adios_transport_hooks.h:15, from ../../../utils/bp2ncd/bp2ncd.c:14: ../../../src/public/mpidummy.h:53:1: warning: "MPI_COMM_WORLD" redefined In file included from ../../../utils/bp2ncd/bp2ncd.c:12: /usr/include/netcdf.h:44:1: warning: this is the location of the previous definition make[3]: *** [bp2ncd-bp2ncd.o] Error 1 make[3]: Leaving directory /turquoise/users/xfan/adios-1.11.0/build/utils/bp2ncd' make[2]: *** [all-recursive] Error 1 make[2]: Leaving directory /turquoise/users/xfan/adios-1.11.0/build/utils' make[1]: *** [all-recursive] Error 1 make[1]: Leaving directory `/turquoise/users/xfan/adios-1.11.0/build' make: *** [all] Error 2 — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#129>, or mute the thread <https://github.com/notifications/unsubscribe-auth/ADGMLU0RtVYR6cTmIQ_wsK-FBNKXeIcJks5r23rtgaJpZM4NSVq4> .

[physixfan]

Thanks for your instant reply! After I used --without-netcdf in my configuration, the previous error is gone. However, I get this error instead:

make[4]: Leaving directory '/turquoise/users/xfan/adios-1.10.0/build/tests/suite/programs'
make[4]: Entering directory '/turquoise/users/xfan/adios-1.10.0/build/tests/suite'
test "../../../tests/suite" = "." || ln -sf ../../../tests/suite/reference .
ln: './reference': cannot overwrite directory
make[4]: *** [all-local] Error 1
make[4]: Leaving directory '/turquoise/users/xfan/adios-1.10.0/build/tests/suite'
make[3]: *** [all-recursive] Error 1
make[3]: Leaving directory '/turquoise/users/xfan/adios-1.10.0/build/tests/suite'
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory '/turquoise/users/xfan/adios-1.10.0/build/tests'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory '/turquoise/users/xfan/adios-1.10.0/build'
make: *** [all] Error 2

[pnorbert]

I don't know what went wrong with your build there. I would do cd /turquoise/users/xfan/adios-1.10.0/build rm -rf ../build/* <configure> make

…

On Fri, May 5, 2017 at 3:49 PM, physixfan ***@***.***> wrote: Thanks for your instant reply! After I used --without-netcdf in my configuration, the previous error is gone. However, I get this error instead: make[4]: Leaving directory /turquoise/users/xfan/adios-1. 10.0/build/tests/suite/programs' make[4]: Entering directory /turquoise/users/xfan/adios-1.10.0/build/tests/suite' test "../../../tests/suite" = "." || ln -sf ../../../tests/suite/reference . ln: ./reference': cannot overwrite directory make[4]: *** [all-local] Error 1 make[4]: Leaving directory/turquoise/users/ xfan/adios-1.10.0/build/tests/suite' make[3]: *** [all-recursive] Error 1 make[3]: Leaving directory /turquoise/users/xfan/adios-1.10.0/build/tests/suite' make[2]: *** [all-recursive] Error 1 make[2]: Leaving directory /turquoise/users/xfan/adios-1.10.0/build/tests' make[1]: *** [all-recursive] Error 1 make[1]: Leaving directory `/turquoise/users/xfan/adios-1.10.0/build' make: *** [all] Error 2 — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#129 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/ADGMLTJlMvwH_00vslIyaQtAR1Y2RQ73ks5r2300gaJpZM4NSVq4> .

[physixfan]

Thanks! Now it is installed successfully.