Bug#889931: python-cartopy FTBFS with proj 5.0.0
Source: python-cartopy Version: 0.14.2+dfsg1-2 Severity: important Tags: upstream User: debian-...@lists.debian.org Usertags: proj-5.0 Dear Maintainer, Your package FTBFS due to missing compatibility with Proj 5.0.0: == FAIL: cartopy.tests.crs.test_mercator.test_central_longitude -- Traceback (most recent call last): File "/usr/lib/python2.7/dist-packages/nose/case.py", line 197, in runTest self.test(*self.arg) File "/build/python-cartopy-0.14.2+dfsg1/.pybuild/pythonX.Y_2.7/build/cartopy/tests/crs/test_mercator.py", line 72, in test_central_longitude [-20037508, -15496570, 20037508, 18764656], decimal=0) File "/usr/lib/python2.7/dist-packages/numpy/testing/utils.py", line 563, in assert_almost_equal return assert_array_almost_equal(actual, desired, decimal, err_msg) File "/usr/lib/python2.7/dist-packages/numpy/testing/utils.py", line 962, in assert_array_almost_equal precision=decimal) File "/usr/lib/python2.7/dist-packages/numpy/testing/utils.py", line 778, in assert_array_compare raise AssertionError(msg) AssertionError: Arrays are not almost equal to 0 decimals (mismatch 25.0%) x: array([-20037508., -15496571., -20037508., 18764656.]) y: array([-20037508, -15496570, 20037508, 18764656]) == FAIL: cartopy.tests.crs.test_robinson.test_transform_point -- Traceback (most recent call last): File "/usr/lib/python2.7/dist-packages/nose/case.py", line 197, in runTest self.test(*self.arg) File "/build/python-cartopy-0.14.2+dfsg1/.pybuild/pythonX.Y_2.7/build/cartopy/tests/crs/test_robinson.py", line 49, in test_transform_point assert_arr_almost_eq(result, (2376187.27182751, 7275317.81573085), _TOL) File "/usr/lib/python2.7/dist-packages/numpy/testing/utils.py", line 962, in assert_array_almost_equal precision=decimal) File "/usr/lib/python2.7/dist-packages/numpy/testing/utils.py", line 778, in assert_array_compare raise AssertionError(msg) AssertionError: Arrays are not almost equal to 7 decimals (mismatch 100.0%) x: array([ 2376187.2757334, 7275317.7120387]) y: array([ 2376187.2718275, 7275317.8157309]) == FAIL: cartopy.tests.crs.test_robinson.test_transform_points -- Traceback (most recent call last): File "/usr/lib/python2.7/dist-packages/nose/case.py", line 197, in runTest self.test(*self.arg) File "/build/python-cartopy-0.14.2+dfsg1/.pybuild/pythonX.Y_2.7/build/cartopy/tests/crs/test_robinson.py", line 66, in test_transform_points [[2376187.27182751, 7275317.81573085, 0]], _TOL) File "/usr/lib/python2.7/dist-packages/numpy/testing/utils.py", line 962, in assert_array_almost_equal precision=decimal) File "/usr/lib/python2.7/dist-packages/numpy/testing/utils.py", line 778, in assert_array_compare raise AssertionError(msg) AssertionError: Arrays are not almost equal to 7 decimals (mismatch 66.67%) x: array([[ 2376187.2757334, 7275317.7120387,0. ]]) y: array([[ 2376187.2718275, 7275317.8157309,0. ]]) == FAIL: test_default (cartopy.tests.crs.test_transverse_mercator.TestOSNI) -- Traceback (most recent call last): File "/build/python-cartopy-0.14.2+dfsg1/.pybuild/pythonX.Y_2.7/build/cartopy/tests/crs/test_transverse_mercator.py", line 104, in test_default 386984.15347340)) File "/usr/lib/python2.7/dist-packages/numpy/testing/utils.py", line 962, in assert_array_almost_equal precision=decimal) File "/usr/lib/python2.7/dist-packages/numpy/testing/utils.py", line 778, in assert_array_compare raise AssertionError(msg) AssertionError: Arrays are not almost equal to 6 decimals (mismatch 100.0%) x: array([ 275614.267627, 386984.20643 ]) y: array([ 275614.871056, 386984.153473]) -- The full build log is attached. The severity of this issue will be increased to serious when the Proj 5.0 transition starts. Kind Regards, Bas dpkg-checkbuilddeps: error: Unmet build dependencies: python-pyshp python-shapely (>= 1.5.6) python3-all-dev python3-nose python3-pyshp python3-shapely (>= 1.5.6) [1;33mW: Unmet build-dependency in source[0m dh clean --with python2,python3 --buildsystem=pybuild dh_testdir -O--buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/home/bas/tmp/debian/python-cartopy-0.14.2+dfsg1' dh_auto_clean || true I:
Bug#884967: opencv: FTBFS on various architectures
Source: opencv Version: 3.2.0+dfsg-4 Severity: serious Justification: makes the package in question unusable or mostly so Control: block 884504 by -1 Dear Maintainer, Your package FTBFS on various architectures, which is blocking the gdal transition (#884504). On most architectures the error is related to tesseract which was updated to 4.00~git2174-3b62badd-5 recently, triggering an uncoordinated transition. armel: cd /<>/opencv-3.2.0+dfsg/obj-arm-linux-gnueabi/modules/saliency && /usr/bin/c++ -DCVAPI_EXPORTS -D__OPENCV_BUILD=1 -isystem /<>/opencv-3.2.0+dfsg/obj-arm-linux-gnueabi -isystem /usr/include/gdal -isystem /usr/include/eigen3 -I/<>/opencv-3.2.0+dfsg/contrib/modules/saliency/include -I/<>/opencv-3.2.0+dfsg/contrib/modules/saliency/src -I/<>/opencv-3.2.0+dfsg/obj-arm-linux-gnueabi/modules/saliency -I/<>/opencv-3.2.0+dfsg/modules/core/include -I/<>/opencv-3.2.0+dfsg/modules/flann/include -I/<>/opencv-3.2.0+dfsg/modules/imgproc/include -I/<>/opencv-3.2.0+dfsg/modules/ml/include -I/<>/opencv-3.2.0+dfsg/modules/imgcodecs/include -I/<>/opencv-3.2.0+dfsg/modules/videoio/include -I/<>/opencv-3.2.0+dfsg/modules/highgui/include -I/<>/opencv-3.2.0+dfsg/modules/features2d/include -g -O2 -fdebug-prefix-map=/<>/opencv-3.2.0+dfsg=. -fstack-protector-strong -Wfo rmat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -W -Wall -Werror=return-type -Werror=non-virtual-dtor -Werror=address -Werror=sequence-point -Wformat -Werror=format-security -Wmissing-declarations -Wundef -Winit-self -Wpointer-arith -Wshadow -Wsign-promo -Wno-narrowing -Wno-delete-non-virtual-dtor -Wno-comment -fdiagnostics-show-option -pthread -fomit-frame-pointer -mfp16-format=ieee -ffunction-sections -fvisibility=hidden -fvisibility-inlines-hidden -Wno-overloaded-virtual -g -O2 -fdebug-prefix-map=/<>/opencv-3.2.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -fPIC -o CMakeFiles/opencv_saliency.dir/src/BING/CmShow.cpp.o -c /<>/opencv-3.2.0+dfsg/contrib/modules/saliency/src/BING/CmShow.cpp In file included from /usr/include/tesseract/ltrresultiterator.h:26:0, from /usr/include/tesseract/resultiterator.h:26, from /usr/include/tesseract/baseapi.h:31, from /<>/opencv-3.2.0+dfsg/contrib/modules/text/src/precomp.hpp:51, from /<>/opencv-3.2.0+dfsg/contrib/modules/text/src/erfilter.cpp:43: /usr/include/tesseract/unichar.h:164:10: error: 'string' does not name a type; did you mean 'stdin'? static string UTF32ToUTF8(const std::vector& str32); ^~ stdin buildlog: https://buildd.debian.org/status/fetch.php?pkg=opencv=armel=3.2.0%2Bdfsg-4%2Bb1=1513664764=0 armhf: In file included from /usr/include/tesseract/ltrresultiterator.h:26:0, from /usr/include/tesseract/resultiterator.h:26, from /usr/include/tesseract/baseapi.h:31, from /<>/opencv-3.2.0+dfsg/contrib/modules/text/src/precomp.hpp:51, from /<>/opencv-3.2.0+dfsg/contrib/modules/text/src/erfilter.cpp:43: /usr/include/tesseract/unichar.h:164:10: error: 'string' does not name a type; did you mean 'stdin'? static string UTF32ToUTF8(const std::vector& str32); ^~ stdin In file included from /usr/include/tesseract/ltrresultiterator.h:26:0, from /usr/include/tesseract/resultiterator.h:26, from /usr/include/tesseract/baseapi.h:31, from /<>/opencv-3.2.0+dfsg/contrib/modules/text/src/precomp.hpp:51, from /<>/opencv-3.2.0+dfsg/contrib/modules/text/src/ocr_beamsearch_decoder.cpp:43: /usr/include/tesseract/unichar.h:164:10: error: 'string' does not name a type; did you mean 'stdin'? static string UTF32ToUTF8(const std::vector& str32); ^~ stdin buildlog: https://buildd.debian.org/status/fetch.php?pkg=opencv=armhf=3.2.0%2Bdfsg-4%2Bb1=1513722611=0 mips: In file included from /usr/include/tesseract/ltrresultiterator.h:26:0, from /usr/include/tesseract/resultiterator.h:26, from /usr/include/tesseract/baseapi.h:31, from /<>/opencv-3.2.0+dfsg/contrib/modules/text/src/precomp.hpp:51, from /<>/opencv-3.2.0+dfsg/contrib/modules/text/src/erfilter.cpp:43: /usr/include/tesseract/unichar.h:164:10: error: 'string' does not name a type; did you mean 'stdin'? static string UTF32ToUTF8(const std::vector& str32); ^~ stdin In file included from /usr/include/tesseract/ltrresultiterator.h:26:0, from /usr/include/tesseract/resultiterator.h:26, from /usr/include/tesseract/baseapi.h:31, from /<>/opencv-3.2.0+dfsg/contrib/modules/text/src/precomp.hpp:51, from /<>/opencv-3.2.0+dfsg/contrib/modules/text/src/ocr_beamsearch_decoder.cpp:43:
Bug#876562: gazebo: FTBFS after 'Built target gazebo_gui'
Source: gazebo Version: 7.8.1+dfsg-1 Severity: serious Justification: makes the package in question unusable or mostly so Dear Maintainer, gazebo currently fails to build in unstable: cd /build/1st/gazebo-7.8.1+dfsg/obj-x86_64-linux-gnu/gazebo/gui && /usr/bin/cmake -E cmake_symlink_library libgazebo_gui.so.7.8.1 libgazebo_gui.so.7 libgazebo_gui.so make[3]: Leaving directory '/build/1st/gazebo-7.8.1+dfsg/obj-x86_64-linux-gnu' [ 88%] Built target gazebo_gui make[2]: Leaving directory '/build/1st/gazebo-7.8.1+dfsg/obj-x86_64-linux-gnu' Makefile:165: recipe for target 'all' failed make[1]: *** [all] Error 2 make[1]: Leaving directory '/build/1st/gazebo-7.8.1+dfsg/obj-x86_64-linux-gnu' dh_auto_build: cd obj-x86_64-linux-gnu && make -j16 returned exit code 2 debian/rules:40: recipe for target 'build' failed make: *** [build] Error 2 The full build log is available at: https://tests.reproducible-builds.org/debian/rbuild/unstable/amd64/gazebo_7.8.1+dfsg-1.rbuild.log Kind Regards, Bas -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#866723: vtk6: FTBFS due to texlive-math-extra no longer existing
Source: vtk6 Version: 6.3.0+dfsg1-5 Severity: serious Tags: patch Justification: makes the package in question unusable or mostly so Dear Maintainer, While preparing the transition to GDAL 2.2.1, your package failed to build due to unsatisfied build dependencies: Depends: texlive-math-extra which is a virtual package and is not provided by any available package The recent revisions of texlive-extra no longer provide this binary package. Dropping the build dependency was sufficient to build vtk6 successfully again. Please apply the attached patch to drop the dependency. Kind Regards, Bas --- vtk6-6.3.0+dfsg1/debian/control 2017-05-09 22:38:24.0 +0200 +++ vtk6-6.3.0+dfsg1/debian/control 2017-07-01 00:52:50.0 +0200 @@ -71,7 +71,6 @@ zlib1g-dev Build-Depends-Indep: doxygen-latex, texlive-binaries, - texlive-math-extra, graphviz, ghostscript, gnuplot-nox -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#840788: vtk6: Change libmysqlclient-dev build dependency to default-libmysqlclient-dev
Source: vtk6 Version: 6.3.0+dfsg1-1 Severity: important Tags: patch Dear Maintainer, Please change the libmysqlclient-dev build dependency to default-libmysqlclient-dev. The vtk6 build dependencies are no longer installable now that libgdal-dev depends on default-libmysqlclient-dev which is not co-installable with libmysqlclient-dev. Kind Regards, Bas --- debian/control.orig 2016-10-14 23:43:19.302315770 +0200 +++ debian/control 2016-10-14 23:40:54.050969558 +0200 @@ -30,7 +30,7 @@ libjpeg-dev, libjsoncpp-dev, libmrmpi-dev, - libmysqlclient-dev, + default-libmysqlclient-dev, libnetcdf-dev, libnetcdf-cxx-legacy-dev, libogg-dev, @@ -98,7 +98,7 @@ libhdf5-mpi-dev, libjpeg-dev, libjsoncpp-dev, - libmysqlclient-dev, + default-libmysqlclient-dev, libnetcdf-dev, libnetcdf-cxx-legacy-dev, libogg-dev, -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#837915: aster: FTBFS due to install failures
Source: aster
Version: 11.5.0+dfsg2-4
Severity: serious
Justification: makes the package in question unusable or mostly so
Control: block 836917 by -1
Dear Maintainer,
The upload of openmpi (2.0.1-3) to unstable has triggered an
uncoordinated transition (#836917). Unfortunately your package FTBFS due
to install failures:
stdout:
--
It looks like orte_init failed for some reason; your parallel process is
likely to abort. There are many reasons that a parallel process can
fail during orte_init; some of which are due to configuration or
environment problems. This failure appears to be an internal failure;
here's some additional information (which may only be relevant to an
Open MPI developer):
init pmix failed
--> Returned value Unreachable (-12) instead of ORTE_SUCCESS
--
--
It looks like orte_init failed for some reason; your parallel process is
likely to abort. There are many reasons that a parallel process can
fail during orte_init; some of which are due to configuration or
environment problems. This failure appears to be an internal failure;
here's some additional information (which may only be relevant to an
Open MPI developer):
orte_ess_init failed
--> Returned value Unreachable (-12) instead of ORTE_SUCCESS
--
--
It looks like MPI_INIT failed for some reason; your parallel process is
likely to abort. There are many reasons that a parallel process can
fail during MPI_INIT; some of which are due to configuration or environment
problems. This failure appears to be an internal failure; here's some
additional information (which may only be relevant to an Open MPI
developer):
ompi_mpi_init: ompi_rte_init failed
--> Returned "Unreachable" (-12) instead of "Success" (0)
--
stderr: [babin:16923] PMIX ERROR: UNREACHABLE in file src/client/pmix_client.c
at line 983
[babin:16924] PMIX ERROR: INVALID-CREDENTIAL in file
src/server/pmix_server_listener.c at line 540
[babin:16923] PMIX ERROR: UNREACHABLE in file src/client/pmix_client.c at line
199
*** An error occurred in MPI_Init
*** on a NULL communicator
*** MPI_ERRORS_ARE_FATAL (processes in this communicator will now abort,
***and potentially your MPI job)
[babin:16923] Local abort before MPI_INIT completed completed successfully,
but am not able to aggregate error messages, and not able to guarantee that all
other processes were killed!
To run manually, set:
BINDIR="/«BUILDDIR»/aster-11.5.0+dfsg2/debian/tmp/usr/bin"
PYTHONDIR="/usr/lib/python2.7/dist-packages"
and copy/paste the command line below:
Command
'LD_LIBRARY_PATH="/«BUILDDIR»/aster-11.5.0+dfsg2/debian/tmp/usr/lib:/usr/lib/x86_64-linux-gnu/libfakeroot:/usr/lib64/libfakeroot:/usr/lib32/libfakeroot"
${BINDIR}/aster
/«BUILDDIR»/aster-11.5.0+dfsg2/debian/tmp/usr/lib/aster/Execution/E_SUPERV.py
-commandes /«BUILDDIR»/aster-11.5.0+dfsg2/build/release/fort.1 -memjeveux 500
-tpmax 120 --bibpyt /«BUILDDIR»/aster-11.5.0+dfsg2/debian/tmp/usr/lib/aster'
returned 1
debian/rules:45: recipe for target 'override_dh_auto_install' failed
Kind Regards,
Bas
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Bug#837914: esys-particle: FTBFS due to test failures
Source: esys-particle Version: 2.3.4+dfsg1-2 Severity: serious Justification: makes the package in question unusable or mostly so Control: block 836917 by -1 Dear Maintainer, The upload of openmpi (2.0.1-3) to unstable has triggered an uncoordinated transition (#836917). Unfortunately your package FTBFS due to test failures: cd /«BUILDDIR»/esys-particle-2.3.4+dfsg1/debian/test; mpirun --allow-run-as-root -np 3 /«BUILDDIR»/esys-particle-2.3.4+dfsg1/debian/esys-particle/usr/bin/esysparticle compression.py; cat nbons.dat; cat ekin.dat; cat epot.dat [babin:06791] PMIX ERROR: INVALID-CREDENTIAL in file src/server/pmix_server_listener.c at line 540 [babin:06796] PMIX ERROR: UNREACHABLE in file src/client/pmix_client.c at line 983 [babin:06796] PMIX ERROR: UNREACHABLE in file src/client/pmix_client.c at line 199 *** An error occurred in MPI_Init *** on a NULL communicator *** MPI_ERRORS_ARE_FATAL (processes in this communicator will now abort, ***and potentially your MPI job) [babin:6796] Local abort before MPI_INIT completed completed successfully, but am not able to aggregate error messages, and not able to guarantee that all other processes were killed! -- It looks like MPI_INIT failed for some reason; your parallel process is likely to abort. There are many reasons that a parallel process can fail during MPI_INIT; some of which are due to configuration or environment problems. This failure appears to be an internal failure; here's some additional information (which may only be relevant to an Open MPI developer): ompi_mpi_init: ompi_rte_init failed --> Returned "(null)" (-43) instead of "Success" (0) -- --- Primary job terminated normally, but 1 process returned a non-zero exit code.. Per user-direction, the job has been aborted. --- -- mpirun detected that one or more processes exited with non-zero status, thus causing the job to be terminated. The first process to do so was: Process name: [[38239,1],0] Exit code:1 -- cat: nbons.dat: No such file or directory cat: ekin.dat: No such file or directory cat: epot.dat: No such file or directory Kind Regards, Bas -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#837152: armadillo: Dependencies not satisfiable (superlu updated to 5.2.1)
Source: armadillo Version: 1:6.700.6+dfsg-1 Severity: serious Justification: makes the package in question unusable or mostly so Control: affects -1 src:qgis src:gdal src:pktools src:vtk6 Dear Maintainer, superlu has been updated to version 5.2.1 in unstable, which makes the armadillo packages uninstallable due to the version 4.3 constraint. This affects all reverse dependencies of armadillo. Version 1:7.400.1+dfsg-1 in experimental does not have the superlu 4.3 version constraint, but will require a transition. Please coordinate the armadillo transition with the Release Team as soon as possible, or fix the superlu dependency issue for the version in unstable in the mean time. Kind Regards, Bas -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#837109: hypre: -dev package library dependency not binNMU safe
Source: hypre
Version: 2.8.0b-3
Severity: serious
Tags: patch
Justification: makes the package in question unusable or mostly so
Control: block 836917 by -1
Control: affects -1 src:freefem++ src:petsc src:aster src:petsc4py src:slepc
src:deal.ii src:getdp src:slepc4py src:dolfin
Dear Maintainer,
The upload of openmpi (2.0.1-3) has triggered an uncoordinated
transition (#836917). Unfortunately the version constraint on the
library package from the -dev package is not binNMU safe causing it not
to be installable when the package version contains a binNMU version
(+bN), this prevents the rebuilds of freefem++ & petsc:
freefem++ build-depends on:
- libhypre-dev:amd64
libhypre-dev depends on missing:
- libhypre-2.8.0b:amd64 (< 2.8.0b-3+1~)
petsc build-depends on:
- libhypre-dev:amd64 (>= 2.4.0)
libhypre-dev depends on missing:
- libhypre-2.8.0b:amd64 (< 2.8.0b-3+1~)
The attached patch turn the -dev package into an arch:any package with a
(= ${binary:Version) version requirement for the library package which
ensures that the same version of the -dev & library packages are
installed and which supports +bN binary versions for binNMUs.
Please apply the patch in the next revision of hypre to unblock the
rebuilds of freefem++, petsc, and their reverse dependencies for the
ongoing openmpi transition.
Kind Regards,
Bas
diff -Nru hypre-2.8.0b/debian/control hypre-2.8.0b/debian/control
--- hypre-2.8.0b/debian/control 2016-02-29 13:08:46.0 +0100
+++ hypre-2.8.0b/debian/control 2016-09-08 21:29:20.0 +0200
@@ -32,12 +32,11 @@
This package contains the shared libraries.
Package: libhypre-dev
-Architecture: all
+Architecture: any
Section: libdevel
Depends:
libblas-dev | libblas.so,
- libhypre-2.8.0b (>= ${source:Version}),
- libhypre-2.8.0b (<< ${source:Version}+1~),
+ libhypre-2.8.0b (= ${binary:Version}),
liblapack-dev | liblapack.so,
libsuperlu-dev,
mpi-default-dev,
--
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Bug#837055: fftw: FTBFS due to bfnnconv.pl failing to execute m-ascii.pl (. removed from @INC in perl)
Source: fftw
Version: 2.1.5-4
Severity: serious
Tags: patch
Justification: makes the package in question unusable or mostly so
Control: block 836917 by -1
Dear Maintainer,
The upload of openmpi (2.0.1-3) has triggered an uncoordinated
transition (#836917). Unfortunately your package FTBFS due to the recent
change in perl:
https://lists.debian.org/debian-devel-announce/2016/08/msg00013.html
The attached patch adds . back to @INC if it's not present, to fix the
bfnnconv.pl failure to execute m-ascii.pl.
Kind Regards,
Bas
diff -Nru fftw-2.1.5/debian/patches/perl-dot-in-INC.patch fftw-2.1.5/debian/patches/perl-dot-in-INC.patch
--- fftw-2.1.5/debian/patches/perl-dot-in-INC.patch 1970-01-01 01:00:00.0 +0100
+++ fftw-2.1.5/debian/patches/perl-dot-in-INC.patch 2016-09-08 13:11:40.0 +0200
@@ -0,0 +1,19 @@
+Description: Add . to @INC if removed for CVE-2016-1238.
+ bfnnconv.pl fails to execute m-ascii.pl otherwise.
+ See also: https://lists.debian.org/debian-devel-announce/2016/08/msg00013.html
+Author: Bas Couwenberg <sebas...@debian.org>
+
+--- a/FAQ/bfnnconv.pl
b/FAQ/bfnnconv.pl
+@@ -21,6 +21,11 @@
+ # by the GPL. However, I would appreciate it if you credited me if
+ # appropriate in any documents you format using BFNN.)
+
++# Add . to @INC if removed for CVE-2016-1238
++BEGIN {
++push @INC, "." if(!grep /^\.$/, @INC);
++}
++
+ @outputs=('ascii','info','html');
+
+ while ($ARGV[0] =~ m/^\-/) {
diff -Nru fftw-2.1.5/debian/patches/series fftw-2.1.5/debian/patches/series
--- fftw-2.1.5/debian/patches/series 2016-07-11 08:55:51.0 +0200
+++ fftw-2.1.5/debian/patches/series 2016-09-08 13:08:54.0 +0200
@@ -4,3 +4,4 @@
05_ac_define_syntax.diff
info-syntax
fix-texi2html-perl522.patch
+perl-dot-in-INC.patch
--
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Bug#821221: RM: python-scientific -- RoQA; RC buggy, inactive upstream
Package: ftp.debian.org Severity: normal Control: block -1 by 821214 821215 821216 821217 821219 Please remove python-scientific from Debian unstable. python-scientific is incompatible with numpy 1.9 and hasn't seen any upstream activity since 2014. python-scientific is keeping the old netcdf (1:4.1.3-7.2) in unstable which is causing testing migration problems for every new revising since the transition in October 2015. Kind Regards, Bas -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#821215: dolfin: Depends on unmaintained python-netcdf
Source: dolfin Version: 1.6.0-1 Severity: serious Justification: makes the package in question unusable or mostly so Dear Maintainer, Please remove the python-netcdf dependency from python-dolfin. python-netcdf is incompatible with numpy 1.9 and hasn't been in testing for almost two years. There hasn't been any upstream activity since 2014, making it unlikly to gain compatibility with numpy 1.9. python-netcdf4 may be a suitable alternative for dolfin, it is actively maintained by the NetCDF upstream developers. This bugreport is filed as part of the process to get all reverse dependencies of python-scientific removed from Debian unstable. If dolfin cannot do without the python-scientific dependency, it will also need to be removed from Debian. Kind Regards, Bas -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#821214: RM: mmtk -- RoQA; RC buggy, inactive upstream
Package: ftp.debian.org Severity: normal Please remove mmtk from unstable. It's incompatible with NumPy 1.9 like its python-scientific dependency. There has been no upstream activity since 2013, making it unlikely to gain compatibility with NumPy 1.9. mmtk needs to be removed to unblock the removal of python-scientific. python-scientific is keeping the old netcdf (1:4.1.3-7.2) in unstable which is causing testing migration problems for every new revising since the transition in October 2015. Kind Regards, Bas -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#807178: apophenia: Update build dependencies for GSL 2.x
Source: apophenia Version: 0.999e+ds-4 Severity: normal Tags: patch Dear Maintainer, Please update your package for the ongoing gsl transition (#804246). The attached patch updates the build dependencies to use libgsl-dev. This change is required to not pull in GSL 1.x via libgsl0-dev. Kind Regards, Bas diff -Nru apophenia-0.999e+ds/debian/changelog apophenia-0.999e+ds/debian/changelog --- apophenia-0.999e+ds/debian/changelog 2015-10-16 10:48:04.0 +0200 +++ apophenia-0.999e+ds/debian/changelog 2015-11-22 00:36:49.0 +0100 @@ -1,3 +1,10 @@ +apophenia (0.999e+ds-4.1) UNRELEASED; urgency=medium + + * Non-maintainer upload. + * Update build dependencies for GSL 2, change libgsl0-dev to libgsl-dev. + + -- Bas Couwenberg <sebas...@debian.org> Sun, 22 Nov 2015 00:36:36 +0100 + apophenia (0.999e+ds-4) unstable; urgency=medium * RC bug fix release: diff -Nru apophenia-0.999e+ds/debian/control apophenia-0.999e+ds/debian/control --- apophenia-0.999e+ds/debian/control 2015-07-27 08:23:38.0 +0200 +++ apophenia-0.999e+ds/debian/control 2015-11-22 00:36:31.0 +0100 @@ -7,7 +7,7 @@ debhelper (>= 9), autotools-dev, autoconf-archive, gnulib, dh-autoreconf, libtool, pkg-config, help2man, - zlib1g-dev, libmysqlclient-dev, libsqlite3-dev, libgsl0-dev, + zlib1g-dev, libmysqlclient-dev, libsqlite3-dev, libgsl-dev, bc, sqlite3 Build-Depends-Indep: graphviz, -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#807224: rivet: Update build dependencies for GSL 2.x
Source: rivet Version: 1.8.3-1.2 Severity: normal Tags: patch Dear Maintainer, Please update your package for the ongoing gsl transition (#804246). The attached patch updates the build dependencies to use libgsl-dev. This change is required to not pull in GSL 1.x via libgsl0-dev. Kind Regards, Bas diff -Nru rivet-1.8.3/debian/changelog rivet-1.8.3/debian/changelog --- rivet-1.8.3/debian/changelog 2015-10-20 00:38:55.0 +0200 +++ rivet-1.8.3/debian/changelog 2015-11-22 22:07:09.0 +0100 @@ -1,3 +1,10 @@ +rivet (1.8.3-1.3) UNRELEASED; urgency=medium + + * Non-maintainer upload. + * Update build dependencies for GSL 2, change libgsl0-dev to libgsl-dev. + + -- Bas Couwenberg <sebas...@debian.org> Sun, 22 Nov 2015 22:07:06 +0100 + rivet (1.8.3-1.2) unstable; urgency=medium * Non-maintainer upload. diff -Nru rivet-1.8.3/debian/control rivet-1.8.3/debian/control --- rivet-1.8.3/debian/control 2015-10-20 00:36:39.0 +0200 +++ rivet-1.8.3/debian/control 2015-11-22 22:07:04.0 +0100 @@ -3,7 +3,7 @@ Priority: optional Maintainer: Debian Science Maintainers <debian-science-maintainers@lists.alioth.debian.org> Uploaders: Lifeng Sun <lifong...@gmail.com> -Build-Depends: debhelper (>= 8.0.0), autotools-dev, libhepmc-dev, libfastjet-dev (>= 3.0.6+dfsg-1.1~), libfastjetplugins-dev, libfastjettools-dev, libyaml-cpp-dev, dh-autoreconf, libgsl0-dev, libtinyxml-dev, chrpath, libboost-dev, python-dev, python-support, swig, gfortran +Build-Depends: debhelper (>= 8.0.0), autotools-dev, libhepmc-dev, libfastjet-dev (>= 3.0.6+dfsg-1.1~), libfastjetplugins-dev, libfastjettools-dev, libyaml-cpp-dev, dh-autoreconf, libgsl-dev, libtinyxml-dev, chrpath, libboost-dev, python-dev, python-support, swig, gfortran Build-Depends-Indep: texlive-science, doxygen-latex Standards-Version: 3.9.3 Homepage: http://rivet.hepforge.org/ -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#807206: hkl: Update build dependencies for GSL 2.x
Source: hkl
Version: 4.99.99.1955-1
Severity: normal
Tags: patch
Dear Maintainer,
Please update your package for the ongoing gsl transition (#804246).
The attached patch updates the build dependencies to use libgsl-dev.
This change is required to not pull in GSL 1.x via libgsl0-dev.
Kind Regards,
Bas
diff -Nru hkl-4.99.99.1955/debian/changelog hkl-4.99.99.1955/debian/changelog
--- hkl-4.99.99.1955/debian/changelog 2015-07-15 16:10:16.0 +0200
+++ hkl-4.99.99.1955/debian/changelog 2015-11-22 17:30:38.0 +0100
@@ -1,3 +1,10 @@
+hkl (4.99.99.1955-1.1) UNRELEASED; urgency=medium
+
+ * Non-maintainer upload.
+ * Update build dependencies for GSL 2, change libgsl0-dev to libgsl-dev.
+
+ -- Bas Couwenberg <sebas...@debian.org> Sun, 22 Nov 2015 17:30:30 +0100
+
hkl (4.99.99.1955-1) unstable; urgency=medium
* Imported Upstream version 4.99.99.1955
diff -Nru hkl-4.99.99.1955/debian/control hkl-4.99.99.1955/debian/control
--- hkl-4.99.99.1955/debian/control 2015-07-07 15:47:50.0 +0200
+++ hkl-4.99.99.1955/debian/control 2015-11-22 17:30:29.0 +0100
@@ -12,7 +12,7 @@
libg3d-dev,
libg3d-plugins,
libgirepository1.0-dev,
- libgsl0-dev,
+ libgsl-dev,
libgtk2.0-dev,
libgtkglext1-dev,
libyaml-dev,
@@ -63,7 +63,7 @@
Depends: ${misc:Depends},
gir1.2-hkl-5.0 (= ${binary:Version}),
install-info,
- libgsl0-dev,
+ libgsl-dev,
libhkl5 (= ${binary:Version})
Pre-Depends: ${misc:Pre-Depends}
Description: diffractometer computation control library - development files
--
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Bug#807200: freefem++: Update build dependencies for GSL 2.x
Source: freefem++ Version: 3.38.1-1 Severity: normal Tags: patch Dear Maintainer, Please update your package for the ongoing gsl transition (#804246). The attached patch updates the build dependencies to use libgsl-dev. This change is required to not pull in GSL 1.x via libgsl0-dev. Kind Regards, Bas diff -Nru freefem++-3.38.1/debian/changelog freefem++-3.38.1/debian/changelog --- freefem++-3.38.1/debian/changelog 2015-09-01 23:16:58.0 +0200 +++ freefem++-3.38.1/debian/changelog 2015-11-22 15:44:06.0 +0100 @@ -1,3 +1,10 @@ +freefem++ (3.38.1-1.1) UNRELEASED; urgency=medium + + * Non-maintainer upload. + * Update build dependencies for GSL 2, change libgsl0-dev to libgsl-dev. + + -- Bas Couwenberg <sebas...@debian.org> Sun, 22 Nov 2015 15:44:02 +0100 + freefem++ (3.38.1-1) unstable; urgency=medium * Imported Upstream version 3.38.1 (Closes: #793237) diff -Nru freefem++-3.38.1/debian/control freefem++-3.38.1/debian/control --- freefem++-3.38.1/debian/control 2015-08-31 00:41:24.0 +0200 +++ freefem++-3.38.1/debian/control 2015-11-22 15:44:01.0 +0100 @@ -10,7 +10,7 @@ libxpm-dev, libmumps-scotch-dev, libmumps-ptscotch-dev, libfltk1.3-dev | libfltk-dev, freeglut3-dev, ghostscript, imagemagick, texlive, texlive-extra-utils, texlive-latex-extra, texlive-font-utils, - libfftw3-dev, libgsl0-dev, + libfftw3-dev, libgsl-dev, libhypre-dev, libarpack2-dev, libsuitesparse-dev, libmumps-dev, libblacs-mpi-dev, libscalapack-mpi-dev, -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#807228: visp: Update build dependencies for GSL 2.x
Source: visp Version: 2.10.0+dfsg-1 Severity: normal Tags: patch Dear Maintainer, Please update your package for the ongoing gsl transition (#804246). The attached patch updates the build dependencies to use libgsl-dev. This change is required to not pull in GSL 1.x via libgsl0-dev. Kind Regards, Bas diff -Nru visp-2.10.0+dfsg/debian/changelog visp-2.10.0+dfsg/debian/changelog --- visp-2.10.0+dfsg/debian/changelog 2015-09-18 17:23:33.0 +0200 +++ visp-2.10.0+dfsg/debian/changelog 2015-11-22 22:49:09.0 +0100 @@ -1,3 +1,10 @@ +visp (2.10.0+dfsg-1.1) UNRELEASED; urgency=medium + + * Non-maintainer upload. + * Update build dependencies for GSL 2, change libgsl0-dev to libgsl-dev. + + -- Bas Couwenberg <sebas...@debian.org> Sun, 22 Nov 2015 22:49:05 +0100 + visp (2.10.0+dfsg-1) unstable; urgency=medium * Replace lena non dfsg images by monkey images (Closes: #794861) diff -Nru visp-2.10.0+dfsg/debian/control visp-2.10.0+dfsg/debian/control --- visp-2.10.0+dfsg/debian/control 2015-09-18 17:23:33.0 +0200 +++ visp-2.10.0+dfsg/debian/control 2015-11-22 22:49:14.0 +0100 @@ -9,7 +9,7 @@ doxygen-latex, libopencv-dev [!any-sparc64 !x32], liblapack-dev, - libgsl0-dev, + libgsl-dev, libcoin80-dev | libcoin60-dev, libsoqt4-dev, libogre-1.9-dev [!any-sh4] | libogre-1.8-dev [!any-sh4] | libogre-dev [!any-sh4], @@ -37,7 +37,7 @@ Section: libdevel Depends: libopencv-dev [!any-sparc64 !x32], liblapack-dev, - libgsl0-dev, + libgsl-dev, libcoin80-dev | libcoin60-dev, libsoqt4-dev, libogre-1.9-dev [!any-sh4] | libogre-1.8-dev [!any-sh4] | libogre-dev [!any-sh4], -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#807237: thepeg: Update build dependencies for GSL 2.x
Source: thepeg Version: 1.8.0-1 Severity: normal Tags: patch Dear Maintainer, Please update your package for the ongoing gsl transition (#804246). The attached patch updates the build dependencies to use libgsl-dev. This change is required to not pull in GSL 1.x via libgsl0-dev. Please note that rivet (#807224) needs to be updated for GSL 2, before thepeg can be rebuilt with GSL 2. Having thepeg rebuilt with GSL 2 will unblock the rebuild for herwig++. Kind Regards, Bas diff -Nru thepeg-1.8.0/debian/changelog thepeg-1.8.0/debian/changelog --- thepeg-1.8.0/debian/changelog 2012-06-16 16:49:45.0 +0200 +++ thepeg-1.8.0/debian/changelog 2015-11-23 01:12:37.0 +0100 @@ -1,3 +1,10 @@ +thepeg (1.8.0-1.1) UNRELEASED; urgency=medium + + * Non-maintainer upload. + * Update build dependencies for GSL 2, change libgsl0-dev to libgsl-dev. + + -- Bas Couwenberg <sebas...@debian.org> Mon, 23 Nov 2015 01:12:29 +0100 + thepeg (1.8.0-1) unstable; urgency=low * Initial release (Closes: #636986) diff -Nru thepeg-1.8.0/debian/control thepeg-1.8.0/debian/control --- thepeg-1.8.0/debian/control 2012-06-16 17:24:03.0 +0200 +++ thepeg-1.8.0/debian/control 2015-11-23 01:12:27.0 +0100 @@ -4,7 +4,7 @@ Maintainer: Debian Science Maintainers <debian-science-maintainers@lists.alioth.debian.org> Uploaders: Lifeng Sun <lifong...@gmail.com> DM-Upload-Allowed: yes -Build-Depends: debhelper (>= 8.0.0), autotools-dev, librivet-dev, libhepmc-dev, liblhapdf-dev, dh-autoreconf, libgsl0-dev, zlib1g-dev, chrpath, default-jdk, libreadline-dev +Build-Depends: debhelper (>= 8.0.0), autotools-dev, librivet-dev, libhepmc-dev, liblhapdf-dev, dh-autoreconf, libgsl-dev, zlib1g-dev, chrpath, default-jdk, libreadline-dev Build-Depends-Indep: doxygen-latex Standards-Version: 3.9.3 Homepage: http://projects.hepforge.org/thepeg/ -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#807232: 3depict: Update build dependencies for GSL 2.x
Source: 3depict Version: 0.0.18-2 Severity: normal Tags: patch Dear Maintainer, Please update your package for the ongoing gsl transition (#804246). The attached patch updates the build dependencies to use libgsl-dev. This change is required to not pull in GSL 1.x via libgsl0-dev. Please note that mathgl (#805801) needs to be updated for GSL 2, before 3depict can be rebuilt with GSL 2. Kind Regards, Bas diff -Nru 3depict-0.0.18/debian/changelog 3depict-0.0.18/debian/changelog --- 3depict-0.0.18/debian/changelog 2015-05-29 21:38:15.0 +0200 +++ 3depict-0.0.18/debian/changelog 2015-11-22 23:24:23.0 +0100 @@ -1,3 +1,10 @@ +3depict (0.0.18-2.1) UNRELEASED; urgency=medium + + * Non-maintainer upload. + * Add build dependency for GSL 2: libgsl-dev. + + -- Bas Couwenberg <sebas...@debian.org> Sun, 22 Nov 2015 23:23:48 +0100 + 3depict (0.0.18-2) unstable; urgency=medium [ Edmund Grimley Evans ] diff -Nru 3depict-0.0.18/debian/control 3depict-0.0.18/debian/control --- 3depict-0.0.18/debian/control 2015-05-29 21:36:40.0 +0200 +++ 3depict-0.0.18/debian/control 2015-11-22 23:23:11.0 +0100 @@ -9,6 +9,7 @@ libpng-dev | libpng15-dev, libqhull-dev, libwxgtk3.0-dev, + libgsl-dev, libftgl-dev, libxml2-dev, libmgl-dev (>= 2.0), -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#806835: tamuanova: Update build dependencies for GSL 2.x
Source: tamuanova Version: 0.2-3 Severity: normal Tags: patch Dear Maintainer, Please update your package for the ongoing gsl transition (#804246). The attached patch updates the build dependencies to use libgsl-dev. Having tamuanova rebuilt for the gsl transition will unblock the rebuilds of altree & ruby-gsl (#804499). Kind Regards, Bas diff -Nru tamuanova-0.2/debian/changelog tamuanova-0.2/debian/changelog --- tamuanova-0.2/debian/changelog 2013-07-14 00:03:51.0 +0200 +++ tamuanova-0.2/debian/changelog 2015-11-22 22:41:20.0 +0100 @@ -1,3 +1,10 @@ +tamuanova (0.2-3.1) UNRELEASED; urgency=medium + + * Non-maintainer upload. + * Update build dependencies for GSL 2, change libgsl0-dev to libgsl-dev. + + -- Bas Couwenberg <sebas...@debian.org> Sun, 22 Nov 2015 22:41:17 +0100 + tamuanova (0.2-3) unstable; urgency=low * Fix FTBFS with texinfo > 5 (Closes: 712330) diff -Nru tamuanova-0.2/debian/control tamuanova-0.2/debian/control --- tamuanova-0.2/debian/control 2013-07-14 00:00:47.0 +0200 +++ tamuanova-0.2/debian/control 2015-11-22 22:41:16.0 +0100 @@ -3,7 +3,7 @@ Maintainer: Debian Science Team <debian-science-maintainers@lists.alioth.debian.org> Uploaders: Scott Howard <show...@debian.org>, Gudjon I. Gudjonsson <gud...@gudjon.org> Build-Depends: debhelper (>= 9), autotools-dev, dh-autoreconf, - libgsl0-dev, texinfo + libgsl-dev, texinfo Standards-Version: 3.9.4 Section: libs Homepage: http://www.stat.tamu.edu/~aredd/tamuanova/ -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#805844: herwig++: Fails to build with GSL 2
Source: herwig++ Version: 2.6.0-1 Severity: important Tags: upstream Dear Maintainer, Your package fails to build with GSL 2: checking for gsl location... not found configure: error: Can't find /usr/lib/libgsl.a or the headers in /usr/include This needs to be fixed for the ongoing gsl transition (#804246). The full build log is attached, as is a patch to update the build dependencies for GSL 2 (changing libgsl0-dev to libgsl-dev). Kind Regards, Bas I: using cowbuilder as pbuilder dpkg-checkbuilddeps: Unmet build dependencies: libthepeg-dev libfastjet-dev libfastjettools-dev libfastjetplugins-dev libgsl-dev W: Unmet build-dependency in source dpkg-buildpackage: source package herwig++ dpkg-buildpackage: source version 2.6.0-1.1 dpkg-buildpackage: source distribution UNRELEASED dpkg-buildpackage: source changed by Bas Couwenberg <sebas...@debian.org> dpkg-source --before-build herwig++-2.6.0 dpkg-source: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-checkbuilddeps: Unmet build dependencies: libthepeg-dev libfastjet-dev libfastjettools-dev libfastjetplugins-dev libgsl-dev dpkg-buildpackage: warning: build dependencies/conflicts unsatisfied; aborting dpkg-buildpackage: warning: (Use -d flag to override.) dpkg-buildpackage: warning: this is currently a non-fatal warning with -S, but will probably become fatal in the future fakeroot debian/rules clean dh clean --with autoreconf --parallel dh_testdir -O--parallel dh_auto_clean -O--parallel dh_autoreconf_clean -O--parallel dh_clean -O--parallel dpkg-source -b herwig++-2.6.0 dpkg-source: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-source: info: using source format `3.0 (quilt)' dpkg-source: info: building herwig++ using existing ./herwig++_2.6.0.orig.tar.gz dpkg-source: info: building herwig++ in herwig++_2.6.0-1.1.debian.tar.xz dpkg-source: info: building herwig++ in herwig++_2.6.0-1.1.dsc dpkg-genchanges -S >../herwig++_2.6.0-1.1_source.changes dpkg-genchanges: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-genchanges: not including original source code in upload dpkg-source --after-build herwig++-2.6.0 dpkg-source: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-buildpackage: binary and diff upload (original source NOT included) -> Copying COW directory forking: rm -rf /var/cache/pbuilder/build//cow.14806 forking: cp -al /var/cache/pbuilder/base-sid+rebuild.cow /var/cache/pbuilder/build//cow.14806 I: removed stale ilistfile /var/cache/pbuilder/build//cow.14806/.ilist forking: chroot /var/cache/pbuilder/build//cow.14806 cowdancer-ilistcreate /.ilist find . -xdev -path ./home -prune -o \( \( -type l -o -type f \) -a -links +1 -print0 \) | xargs -0 stat --format '%d %i ' -> Invoking pbuilder forking: pbuilder build --debbuildopts --debbuildopts --buildplace /var/cache/pbuilder/build//cow.14806 --buildresult /var/cache/pbuilder/result/ --debbuildopts --no-targz --internal-chrootexec chroot /var/cache/pbuilder/build//cow.14806 cow-shell /home/bas/tmp/debian/herwig++_2.6.0-1.1.dsc I: Running in no-targz mode I: using fakeroot in build. I: pbuilder: network access will be disabled during build I: Current time: Mon Nov 23 01:32:09 CET 2015 I: pbuilder-time-stamp: 1448238729 I: copying local configuration I: mounting /proc filesystem I: mounting /run/shm filesystem I: mounting /dev/pts filesystem I: policy-rc.d already exists I: Obtaining the cached apt archive contents I: Installing the build-deps W: no hooks of type D found -- ignoring -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team <pbuilder-ma...@lists.alioth.debian.org> Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 8.0.0), autotools-dev, dh-autoreconf, libthepeg-dev, libfastjet-dev, libfastjettools-dev, libfastjetplugins-dev, libboost-dev, libgsl-dev, gfortran, chrpath dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 12433 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper (>= 8.0
Bug#805829: r-cran-gsl: Fails to build with GSL 2
Source: r-cran-gsl Version: 1.9-10-1 Severity: important Tags: upstream Dear Maintainer, Your package fails to build with GSL 2: configure: error: Need GSL version >= 1.12 ERROR: configuration failed for package 'gsl' This needs to be fixed for the ongoing gsl transition (#804246). The full build log is attached, as is a patch to update the build dependencies for GSL 2 (changing libgsl0-dev to libgsl-dev). Kind Regards, Bas I: using cowbuilder as pbuilder dpkg-checkbuilddeps: Unmet build dependencies: libgsl-dev W: Unmet build-dependency in source dpkg-buildpackage: source package r-cran-gsl dpkg-buildpackage: source version 1.9-10-1.1 dpkg-buildpackage: source distribution UNRELEASED dpkg-buildpackage: source changed by Bas Couwenberg <sebas...@debian.org> dpkg-source --before-build r-cran-gsl-1.9-10 dpkg-checkbuilddeps: Unmet build dependencies: libgsl-dev dpkg-buildpackage: warning: build dependencies/conflicts unsatisfied; aborting dpkg-buildpackage: warning: (Use -d flag to override.) dpkg-buildpackage: warning: this is currently a non-fatal warning with -S, but will probably become fatal in the future fakeroot debian/rules clean test -x debian/rules dh_clean if test -d src; then\ find src -regex ".*\.o" | \ xargs --no-run-if-empty -r rm; \ fi rm -f config.log config.status dpkg-source -b r-cran-gsl-1.9-10 dpkg-source: info: using source format `3.0 (quilt)' dpkg-source: info: building r-cran-gsl using existing ./r-cran-gsl_1.9-10.orig.tar.gz dpkg-source: info: building r-cran-gsl in r-cran-gsl_1.9-10-1.1.debian.tar.xz dpkg-source: info: building r-cran-gsl in r-cran-gsl_1.9-10-1.1.dsc dpkg-genchanges -S >../r-cran-gsl_1.9-10-1.1_source.changes dpkg-genchanges: not including original source code in upload dpkg-source --after-build r-cran-gsl-1.9-10 dpkg-buildpackage: binary and diff upload (original source NOT included) -> Copying COW directory forking: rm -rf /var/cache/pbuilder/build//cow.29361 forking: cp -al /var/cache/pbuilder/base-sid.cow /var/cache/pbuilder/build//cow.29361 I: removed stale ilistfile /var/cache/pbuilder/build//cow.29361/.ilist forking: chroot /var/cache/pbuilder/build//cow.29361 cowdancer-ilistcreate /.ilist find . -xdev -path ./home -prune -o \( \( -type l -o -type f \) -a -links +1 -print0 \) | xargs -0 stat --format '%d %i ' -> Invoking pbuilder forking: pbuilder build --debbuildopts --debbuildopts --buildplace /var/cache/pbuilder/build//cow.29361 --buildresult /var/cache/pbuilder/result/ --debbuildopts --no-targz --internal-chrootexec chroot /var/cache/pbuilder/build//cow.29361 cow-shell /home/bas/tmp/debian/r-cran-gsl_1.9-10-1.1.dsc I: Running in no-targz mode I: using fakeroot in build. I: pbuilder: network access will be disabled during build I: Current time: Sun Nov 22 21:58:53 CET 2015 I: pbuilder-time-stamp: 1448225933 I: copying local configuration I: mounting /proc filesystem I: mounting /run/shm filesystem I: mounting /dev/pts filesystem I: policy-rc.d already exists I: Obtaining the cached apt archive contents I: Installing the build-deps W: no hooks of type D found -- ignoring -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team <pbuilder-ma...@lists.alioth.debian.org> Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 9.0), cdbs, r-base-dev, libgsl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 12439 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper (>= 9.0); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on cdbs; however: Package cdbs is not installed. pbuilder-satisfydepends-dummy depends on r-base-dev; however: Package r-base-dev is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested versio
Bug#802624: vtk6: Fails to build with GDAL 2.0
Source: vtk6
Version: 6.2.0+dfsg1-4
Severity: important
Tags: patch upstream
User: debian-...@lists.debian.org
Usertags: gdal-2.0
Dear Maintainer,
vtk6 (6.2.0+dfsg1-4) FTBFS due to missing compatibility with
GDAL/OGR 2.0:
error: 'Open' is not a member of 'OGRSFDriverRegistrar'
GDAL 2.0 support in discussed upstream in #15692:
http://www.vtk.org/Bug/view.php?id=15692
That issue links to a patch from ArchLinux for GDAL 2.0 support:
https://projects.archlinux.org/svntogit/community.git/tree/trunk/gdal2.patch?h=packages/vtk
The attached debdiff includes the changes from ArchLinux patch further
improved to support both GDAL 1.x and 2.x, please consider including
these changes in the next vtk6 upload.
Can you also forward the improved patch to the vtk bugtracker for which
I don't have an account?
The severity of this issue will be increased to serious when the GDAL
2.0 transition starts.
There are no GDAL 2.0.1 packages available in experimental yet, because
the transition to GDAL 1.11.3 (#80) needs to start first. This issue
was triaged using locally built GDAL 2.0.1 packages from the
experimental-2.0 branch in git:
http://anonscm.debian.org/cgit/pkg-grass/gdal.git/log/?h=experimental-2.0
Kind Regards,
Bas
diff -Nru vtk6-6.2.0+dfsg1/debian/changelog vtk6-6.2.0+dfsg1/debian/changelog
--- vtk6-6.2.0+dfsg1/debian/changelog 2015-08-25 20:13:44.0 +0200
+++ vtk6-6.2.0+dfsg1/debian/changelog 2015-10-21 19:24:51.0 +0200
@@ -1,3 +1,10 @@
+vtk6 (6.2.0+dfsg1-4.1) UNRELEASED; urgency=medium
+
+ * Non-maintainer upload.
+ * Add patch for GDAL 2.0 support.
+
+ -- Bas Couwenberg <sebas...@debian.org> Wed, 21 Oct 2015 19:24:42 +0200
+
vtk6 (6.2.0+dfsg1-4) unstable; urgency=medium
* [83a91c2] Move some more header-files into libvtk6-qt-dev. (Closes: #796891)
diff -Nru vtk6-6.2.0+dfsg1/debian/patches/90_gdal-2.0.patch vtk6-6.2.0+dfsg1/debian/patches/90_gdal-2.0.patch
--- vtk6-6.2.0+dfsg1/debian/patches/90_gdal-2.0.patch 1970-01-01 01:00:00.0 +0100
+++ vtk6-6.2.0+dfsg1/debian/patches/90_gdal-2.0.patch 2015-10-21 15:31:16.0 +0200
@@ -0,0 +1,43 @@
+Description: Fix GDAL 2.0 compatibility.
+ Based on gdal2.patch from ArchLinux, improved to support both GDAL 1.x & 2.x.
+Origin: https://projects.archlinux.org/svntogit/community.git/tree/trunk/gdal2.patch?h=packages/vtk
+Bug: http://www.vtk.org/Bug/view.php?id=15692
+
+--- a/IO/GDAL/vtkGDALVectorReader.cxx
b/IO/GDAL/vtkGDALVectorReader.cxx
+@@ -44,7 +44,11 @@ class vtkGDALVectorReader::Internal
+ public:
+ Internal( const char* srcName, int srcMode, int appendFeatures, int addFeatIds )
+ {
++#if GDAL_VERSION_MAJOR < 2
+ this->Source = OGRSFDriverRegistrar::Open( srcName, srcMode, >Driver );
++#else
++this->Source = (GDALDataset*) OGROpen( srcName, srcMode, NULL );
++#endif
+ if ( ! this->Source )
+ {
+ this->LastError = CPLGetLastErrorMsg();
+@@ -61,7 +65,11 @@ public:
+ {
+ if ( this->Source )
+ {
++#if GDAL_VERSION_MAJOR < 2
+ OGRDataSource::DestroyDataSource( this->Source );
++#else
++ GDALClose( (GDALDatasetH) this->Source );
++#endif
+ }
+ }
+
+@@ -307,7 +315,11 @@ public:
+ return nCells;
+ }
+
++#if GDAL_VERSION_MAJOR < 2
+ OGRDataSource* Source;
++#else
++ GDALDataset* Source;
++#endif
+ OGRSFDriver* Driver;
+ const char* LastError;
+ int LayerIdx;
diff -Nru vtk6-6.2.0+dfsg1/debian/patches/series vtk6-6.2.0+dfsg1/debian/patches/series
--- vtk6-6.2.0+dfsg1/debian/patches/series 2015-08-02 20:23:50.0 +0200
+++ vtk6-6.2.0+dfsg1/debian/patches/series 2015-10-21 12:39:39.0 +0200
@@ -6,3 +6,4 @@
60_use_system_mpi4py.patch
70_fix_ftbfs_gcc49.patch
80_fix_arm_compilation.patch
+90_gdal-2.0.patch
--
debian-science-maintainers mailing list
debian-science-maintainers@lists.alioth.debian.org
http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#794010: vtk: Build dependency on libnetcdf-cxx-legacy-dev required for netcdf transition
Package: vtk Version: 5.8.0-17.5 Severity: normal Tags: patch User: debian-...@lists.debian.org Usertags: netcdf-split-c-f-cxx Dear Maintainer, For the upcoming netcdf transition your package needs a build dependency on libnetcdf-cxx-legacy-dev to build successfully with the netcdf packages in experimental. The attached patches add the build dependency for vtk (5.8.0-17.5) and vtk (5.10.1+dfsg-1). Since NetCDF 4.3.3.1 the upstream developers have split the project into language specific releases, the netcdf Debian package has likewise split into language specific source packages: ┌─┬───┬──┐ │ NetCDF project │ Source package│ -dev package │ ├─┼───┼──┤ │ NetCDF-C│ netcdf│ libnetcdf-dev│ │ NetCDF C++ (cxx4) │ netcdf-cxx│ libnetcdf-c++4-dev │ │ NetCDF C++ (legacy) │ netcdf-cxx-legacy │ libnetcdf-cxx-legacy-dev │ │ NetCDF-Fortran │ netcdf-fortran│ libnetcdff-dev │ └─┴───┴──┘ The netcdf-cxx provides the new NetCDF 4 C++ API in libnetcdf_c++4.so.1, and netcdf-cxx-legacy the legacy NetCDF 3 C++ API in libnetcdf_c++.so.4. For more information about the different NetCDF C++ APIs, see: http://www.unidata.ucar.edu/downloads/netcdf/netcdf-cxx/index.jsp Kind Regards, Bas diff -ruN ../vtk-5.8.0_debian.orig/control debian/control --- ../vtk-5.8.0_debian.orig/control 2015-07-29 18:20:10.724642259 +0200 +++ debian/control 2015-07-29 18:20:33.972517843 +0200 @@ -5,7 +5,7 @@ Build-Depends: debhelper (= 9), libgl1-mesa-dev | libgl-dev, libglu1-mesa-dev | libglu-dev, libosmesa6-dev, libx11-dev, libxt-dev, xvfb, x11proto-core-dev, tcl8.5-dev, tk8.5-dev, python-dev (= 2.5.3), cmake (= 2.6.3), libexpat-dev, libjpeg-dev, libpng-dev, libtiff-dev, zlib1g-dev, default-jdk, - libboost-all-dev, mpi-default-dev, libnetcdf-dev, libmysqlclient-dev, libpq-dev, libxpm-dev, + libboost-all-dev, mpi-default-dev, libnetcdf-dev, libnetcdf-cxx-legacy-dev, libmysqlclient-dev, libpq-dev, libxpm-dev, libavformat-dev, libavutil-dev, libavcodec-dev, libswscale-dev, libgl2ps-dev, libsqlite3-dev, libfreetype6-dev, ftgl-dev, libqt4-dev, python-support (= 0.5.3), libxml2-dev, pkg-config, libhdf5-dev, dpkg-dev (= 1.16.1~) diff -ruN ../vtk-5.10.1+dfsg_debian.orig/control debian/control --- ../vtk-5.10.1+dfsg_debian.orig/control 2015-07-29 19:56:58.797665448 +0200 +++ debian/control 2015-07-29 19:57:15.053580321 +0200 @@ -20,6 +20,7 @@ libjpeg-dev, libmysqlclient-dev, libnetcdf-dev, + libnetcdf-cxx-legacy-dev, libosmesa6-dev, libpng-dev, libpq-dev, @@ -146,6 +147,7 @@ libjpeg-dev, libmysqlclient-dev, libnetcdf-dev, + libnetcdf-cxx-legacy-dev, libpng-dev, libpq-dev, libqt4-dev, -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#794040: vtk6: Build dependency on libnetcdf-cxx-legacy-dev required for netcdf transition
Package: vtk6 Version: 6.2.0+dfsg1-1 Severity: normal Tags: patch User: debian-...@lists.debian.org Usertags: netcdf-split-c-f-cxx Dear Maintainer, For the upcoming netcdf transition your package needs a build dependency on libnetcdf-cxx-legacy-dev to build successfully with the netcdf packages in experimental. The attached patch adds the build dependency for vtk6 (6.2.0+dfsg1-1). Since NetCDF 4.3.3.1 the upstream developers have split the project into language specific releases, the netcdf Debian package has likewise split into language specific source packages: ┌─┬───┬──┐ │ NetCDF project │ Source package│ -dev package │ ├─┼───┼──┤ │ NetCDF-C│ netcdf│ libnetcdf-dev│ │ NetCDF C++ (cxx4) │ netcdf-cxx│ libnetcdf-c++4-dev │ │ NetCDF C++ (legacy) │ netcdf-cxx-legacy │ libnetcdf-cxx-legacy-dev │ │ NetCDF-Fortran │ netcdf-fortran│ libnetcdff-dev │ └─┴───┴──┘ The netcdf-cxx provides the new NetCDF 4 C++ API in libnetcdf_c++4.so.1, and netcdf-cxx-legacy the legacy NetCDF 3 C++ API in libnetcdf_c++.so.4. For more information about the different NetCDF C++ APIs, see: http://www.unidata.ucar.edu/downloads/netcdf/netcdf-cxx/index.jsp Kind Regards, Bas diff -ruN ../vtk6-6.2.0+dfsg1_debian.orig/control debian/control --- ../vtk6-6.2.0+dfsg1_debian.orig/control 2015-07-30 03:06:27.175474262 +0200 +++ debian/control 2015-07-30 03:06:55.303326743 +0200 @@ -36,6 +36,7 @@ libmrmpi-dev, libmysqlclient-dev, libnetcdf-dev, + libnetcdf-cxx-legacy-dev, libogg-dev, libosmesa6-dev, libpng-dev, @@ -98,6 +99,7 @@ libjsoncpp-dev, libmysqlclient-dev, libnetcdf-dev, + libnetcdf-cxx-legacy-dev, libogg-dev, libpng-dev, libpq-dev, -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
Bug#793823: etsf-io: Build dependency on libnetcdff-dev required for netcdf transition
Source: etsf-io Version: 1.0.3-4 Severity: normal Tags: patch User: debian-...@lists.debian.org Usertags: netcdf-split-c-f-cxx Dear Maintainer, For the upcoming netcdf transition your package needs a build dependency on libnetcdff-dev to build successfully. Since NetCDF 4.3.3.1 the upstream developers have split the project into language specific releases, the netcdf Debian package has likewise split into language specific source packages: ┌─┬───┬──┐ │ NetCDF project │ Source package│ -dev package │ ├─┼───┼──┤ │ NetCDF-C│ netcdf│ libnetcdf-dev│ │ NetCDF C++ (cxx4) │ netcdf-cxx│ libnetcdf-c++4-dev │ │ NetCDF C++ (legacy) │ netcdf-cxx-legacy │ libnetcdf-cxx-legacy-dev │ │ NetCDF-Fortran │ netcdf-fortran│ libnetcdff-dev │ └─┴───┴──┘ The attached patches add the build dependency for etsf-io (1.0.3-4) and etsf-io (1.0.4-1~exp1). Kind Regards, Bas --- debian/control.orig 2015-07-27 22:02:28.339460767 +0200 +++ debian/control 2015-07-27 22:02:45.643370123 +0200 @@ -3,7 +3,7 @@ Priority: optional Maintainer: Debian Science Team debian-science-maintainers@lists.alioth.debian.org Uploaders: Damien Caliste damien.cali...@cea.fr -Build-Depends: debhelper (= 5), cdbs, autotools-dev, gfortran, libnetcdf-dev +Build-Depends: debhelper (= 5), cdbs, autotools-dev, gfortran, libnetcdf-dev, libnetcdff-dev Standards-Version: 3.9.6 Homepage: http://www.etsf.eu/resources/software/libraries_and_tools Vcs-Svn: svn://svn.debian.org/svn/debian-science/packages/etsf-io/ --- debian/control.orig 2015-07-27 21:59:45.556313564 +0200 +++ debian/control 2015-07-27 22:00:41.300021514 +0200 @@ -3,7 +3,7 @@ Priority: optional Maintainer: Debian Science Team debian-science-maintainers@lists.alioth.debian.org Uploaders: Damien Caliste damien.cali...@cea.fr -Build-Depends: debhelper (= 5), cdbs, autotools-dev, gfortran, libnetcdf-dev +Build-Depends: debhelper (= 5), cdbs, autotools-dev, gfortran, libnetcdf-dev, libnetcdff-dev Standards-Version: 3.9.2 Homepage: http://www.etsf.eu/resources/software/libraries_and_tools Vcs-Svn: svn://svn.debian.org/svn/debian-science/packages/etsf-io/ -- debian-science-maintainers mailing list debian-science-maintainers@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
