Re: netcdf Transition
To followup on the rebuilds done by Ross, I've also started a round of
rebuilds.
At the same time I've fixed my ben setup for experimental, so we can now
also track which packages in experimental are fixed already:
http://linuxminded.nl/tmp/pkg-grass-transitions/experimental/html/netcdf.html
Thanks to Alastair several reverse dependencies already have fixed
versions available in experimental. They're still built against the old
libraries because the new netcdf packages hadn't been built with netcdf
(>= 4.3.3.1) yet, that's been corrected with the recent uploads to
experimental.
etsf-io (1.0.3-4 / 1.0.4-1~exp1) initially FTBFS, but succeeds when the
build dependency on libnetcdff-dev is added. I've forwarded the patches
in #793823.
gnudatalanguage (0.9.5-2) still FTBFS due to missing libraries:
/usr/bin/ld: cannot find -lhdf5_hl
/usr/bin/ld: cannot find -lhdf5
/usr/bin/ld: cannot find -lcurl
These are build dependencies of netcdf, so libnetcdf-dev should pull in
their -dev packages. I've added the dependencies in netcdf
(1:4.4.0~rc2-1~exp2), but that only resolves the missing curl library.
gri (2.12.23-8) FTBFS due to #790526, this RC bug has scheduled it for
removal from testing. gri (2.12.23-8) built successfully when Ross
tested it.
libpdl-netcdf-perl (4.20-1) FTBFS because it doesn't search the
Multi-Arch library paths for netcdf.so. Exporting the Multi-Arch library
path allows the build to succeed. I've forwarded the patch in #nnnnnn.
magics++ (2.24.7-3) FTBFS because it's missing NetCDF C++, adding the
libnetcdf-c++4-dev build dependency did not resolve it, so
libnetcdf-cxx-legacy-dev was tried instead and it allows the build to
succeed. Patch forwarded in #793882.
minc (2.2.00-6) FTBFS because a NetCDF related test fails:
FAIL: testminctools.sh
======================
Converted file to MINC2.0 format.
ncvarid: ncid 65536: NetCDF: Variable not found
Version: 1 (netCDF)
FAIL testminctools.sh (exit status: 3)
I've patched minc (2.2.00-6) to report verbose test output and ignore
any test failures to allow the build to succeed. The patch is forwarded
in #793885 in which I also asked the maintainer to help fix the test
failure.
nco (4.5.1-1) FTBFS with some errors:
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 */
^
This FTBFS issue has been reported in #793891 and will need to be
resolved to not hinder the netcdf transition.
...
The bugs filed for the netcdf transition have been usertagged for easy
reference, see:
https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=netcdf-split-c-f-cxx;users=debian-gis@lists.debian.org
Transition: netcdf
libnetcdfc7 (1:4.1.3-7.2) -> libnetcdf7 (1:4.4.0~rc2-1~exp2)
libnetcdfc++4 (1:4.1.3-7.2) -> libnetcdf-c++4-1 (4.2.1-1~exp3) [cxx4]
libnetcdfc++4 (1:4.1.3-7.2) -> libnetcdf-c++4 (4.2-1~exp3) [legacy]
libnetcdff5 (1:4.1.3-7.2) -> libnetcdff6 (4.4.2-1~exp4)
The status of the most recent rebuilds is as follows.
adios (1.8.0-2 / 1.8.0-3) OK / OK
cdftools (3.0-1 / 3.0-2~exp1) FTBFS / OK
cmor (2.9.1-5 / 2.9.1-6) OK / OK
dx (1:4.4.4-7) OK
etsf-io (1.0.3-4 / 1.0.4-1~exp1) OK / OK [patch]
exodusii (6.02.dfsg.1-5 / 6.02.dfsg.1-6) OK / OK
ferret-vis (6.9.3-1 / 6.9.3-2~exp1) FTBFS / OK
gdal (1.10.1+dfsg-9 / 1.11.2+dfsg-1~exp4) OK / OK
gnudatalanguage (0.9.5-2) FTBFS
grace (1:5.1.25-1) OK
grads (2:2.0.2-5 / 2:2.0.2-6) OK / OK
gri (2.12.23-8) FTBFS
kst (2.0.3-4) OK
libpdl-netcdf-perl (4.20-1) OK [patch]
magics++ (2.24.7-3) OK [patch]
minc (2.2.00-6) OK [patch]
nco (4.5.1-1) FTBFS
ncview (2.1.5+ds1-1) TODO
netcdf4-python (1.1.8-2) TODO
oasis3 (3.mct+dfsg.121022-3 / 3.mct+dfsg.121022-4) TODO / TODO
octave-octcdf (1.1.8-1) TODO
ovito (2.3.3+dfsg1-1) TODO
python-scientific (2.9.4-3) TODO
r-cran-ncdf4 (1.13-1) TODO
r-cran-rnetcdf (1.6.3-1-1) TODO
ruby-netcdf (0.6.6-2) TODO
v-sim (3.7.2-1) TODO
vtk (5.8.0-17.5) TODO
cdo (1.6.6+dfsg.1-3) TODO
gmt (5.1.2+dfsg1-1) TODO
metview (4.5.6-1) TODO
ncl (6.3.0-3~exp1) TODO
vtk6 (6.2.0+dfsg1-1 TODO
Kind Regards,
Bas
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