Processed: Re: Bug#793891: nco: FTBFS with netcdf in experimental
Processing commands for cont...@bugs.debian.org: > notfound 793891 nco/4.5.1-1 Bug #793891 [nco] nco: FTBFS with netcdf in experimental No longer marked as found in versions nco/4.5.1-1. > thanks Stopping processing here. Please contact me if you need assistance. -- 793891: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=793891 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems ___ Pkg-grass-devel mailing list Pkg-grass-devel@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/pkg-grass-devel
Bug#793891: nco: FTBFS with netcdf in experimental
Hi Charlie, On 29-07-15 22:39, Charlie Zender wrote: > Any hints here would be appreciated... > NCO builds fine on many different machines. > It appears to me that new Debian netCDF package seems > to cause NCO's configure test for strdup() to fail, > so NCO uses its own internal prototype for strdup() > instead, and then this prototype runs into a conflict > with the strdup() prototype in "string.h". > Not sure why the new netCDF package would alter previous behavior. The biggest changes in the new netcdf library is that it's built with the HDF5 MPI variants (openmpi on most architectures). It may be that an MPI optimized strdup() is used now? I'm having some doubts if it's wise to only build netcdf with the HDF5 MPI variant, instead of in addition to the HDF5 serial variant used by most other applications. Kind Regards, Bas -- GPG Key ID: 4096R/6750F10AE88D4AF1 Fingerprint: 8182 DE41 7056 408D 6146 50D1 6750 F10A E88D 4AF1 ___ Pkg-grass-devel mailing list Pkg-grass-devel@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/pkg-grass-devel
Bug#793891: nco: FTBFS with netcdf in experimental
Any hints here would be appreciated...
NCO builds fine on many different machines.
It appears to me that new Debian netCDF package seems
to cause NCO's configure test for strdup() to fail,
so NCO uses its own internal prototype for strdup()
instead, and then this prototype runs into a conflict
with the strdup() prototype in "string.h".
Not sure why the new netCDF package would alter previous behavior.
On 7/29/15 02:13, Bas Couwenberg wrote:
Package: nco
Version: 4.5.1-1
Severity: normal
Tags: upstream
User: debian-...@lists.debian.org
Usertags: netcdf-split-c-f-cxx
Dear Maintainer,
nco (4.5.1-1) fails to build with the new netcdf packages in
experimental:
libtool: compile: gcc -std=gnu99 -DHAVE_CONFIG_H -I. -I../.. \
-I/usr/include -D_FORTIFY_SOURCE=2 -I/usr/include -g -O2 \
-fstack-protector-strong -Wformat -Werror=format-security -std=c99 \
-D_BSD_SOURCE -D_POSIX_SOURCE -c nco_bnr.c -fPIC -DPIC \
-o .libs/nco_bnr.o
In file included from /usr/include/string.h:635:0,
from nco_att_utl.h:22,
from nco_att_utl.c:10:
nco_sng_utl.h:79:3: error: expected identifier or '(' before '__extension__'
strdup /* [fnc] Duplicate string */
^
In file included from /usr/include/string.h:635:0,
from nco_netcdf.h:46,
from nco_aux.h:22,
from nco_aux.c:19:
nco_sng_utl.h:79:3: error: expected identifier or '(' before '__extension__'
strdup /* [fnc] Duplicate string */
^
The full build log is attached.
The build succeeds with netcdf (1:4.1.3-7.2),
but fails with netcdf (1:4.4.0~rc2-1~exp2).
This issue needs to be resolved to not hinder the upcoming netcdf
transition.
Kind Regards,
Bas
--
Charlie Zender, Earth System Sci. & Computer Sci.
University of California, Irvine 949-891-2429 )'(
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Bug#793891: nco: FTBFS with netcdf in experimental
Package: nco
Version: 4.5.1-1
Severity: normal
Tags: upstream
User: debian-...@lists.debian.org
Usertags: netcdf-split-c-f-cxx
Dear Maintainer,
nco (4.5.1-1) fails to build with the new netcdf packages in
experimental:
libtool: compile: gcc -std=gnu99 -DHAVE_CONFIG_H -I. -I../.. \
-I/usr/include -D_FORTIFY_SOURCE=2 -I/usr/include -g -O2 \
-fstack-protector-strong -Wformat -Werror=format-security -std=c99 \
-D_BSD_SOURCE -D_POSIX_SOURCE -c nco_bnr.c -fPIC -DPIC \
-o .libs/nco_bnr.o
In file included from /usr/include/string.h:635:0,
from nco_att_utl.h:22,
from nco_att_utl.c:10:
nco_sng_utl.h:79:3: error: expected identifier or '(' before '__extension__'
strdup /* [fnc] Duplicate string */
^
In file included from /usr/include/string.h:635:0,
from nco_netcdf.h:46,
from nco_aux.h:22,
from nco_aux.c:19:
nco_sng_utl.h:79:3: error: expected identifier or '(' before '__extension__'
strdup /* [fnc] Duplicate string */
^
The full build log is attached.
The build succeeds with netcdf (1:4.1.3-7.2),
but fails with netcdf (1:4.4.0~rc2-1~exp2).
This issue needs to be resolved to not hinder the upcoming netcdf
transition.
Kind Regards,
Bas
nco_4.5.1-1_netcdf-ftbfs.build.xz
Description: application/xz
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