Bug#802706: slepc: FTBFS: Unable to link with PETSc

[Drew Parsons]

On Thu, 2017-01-05 at 14:10 +0100, Santiago Vila wrote:
> found 802706 3.7.3+dfsg1-3
> thanks
> 
> Hi.
> 
> Sorry for the reopening but this is happening again in stretch.
> (I built this package 200 times, and it failed 200 times).
> 
> Build logs available here:
> 
> https://people.debian.org/~sanvila/build-logs/slepc/
> 
> Thanks.

It's not the same bug.  Attach the configure.log mentioned in the build
log.

It's hdf5 this time.

Drew

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gap-guava is marked for autoremoval from testing

[Debian testing autoremoval watch]

gap-guava 3.13+ds-1 is marked for autoremoval from testing on 2017-01-27

It is affected by these RC bugs:
849661: gap-guava: FTBFS with some SHELLs(?): cd: too many arguments


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Processed: Bug#850027: libfreeimage3: freeimage 3.17.0+ds1-4 makes rviz unusable

[Debian Bug Tracking System]

Processing control commands:

> block 849696 by -1
Bug #849696 [libogre-1.9.0v5] libogre-1.9.0v5: Ogre games abort on startup with 
“basic_string::_M_construct null not valid”
849696 was not blocked by any bugs.
849696 was not blocking any bugs.
Added blocking bug(s) of 849696: 850027
> tags -1 patch
Bug #850027 [libfreeimage3] libfreeimage3: freeimage 3.17.0+ds1-4 makes rviz 
unusable
Added tag(s) patch.

-- 
849696: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=849696
850027: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=850027
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Bug#850027: libfreeimage3: freeimage 3.17.0+ds1-4 makes rviz unusable

[James Cowgill]

Control: block 849696 by -1
Control: tags -1 patch

Hi,

This is of course the same bug as #849696 in OGRE, but I still think it
should be fixed in freeimage.

I'd like to propose this patch (a new version of
Disable-vendored-dependencies.patch is also attached):

https://anonscm.debian.org/cgit/users/jcowgill/freeimage.git/commit/?h=bug-850027=b5f51dbe600e475a6bfc8e0f52335136b57ca123

My patch reverts the one applied in #841089 which broke the API, and
instead of removing the G3 plugin, it includes a G3 plugin which does
nothing (trying to load a G3 file will always fail). The advantage of
this is that the API is identical to upstream and it should also fix
the issue in #841089 as well.

Thanks,
James
From: Ghislain Antony Vaillant 
Date: Tue, 3 Nov 2015 14:39:33 +
Subject: Disable vendored dependencies.

This commit disables usage of the embedded dependencies for building
FreeImage and FreeImagePlus. Functionalities which could not use the
packaged dependencies are delibarately disabled for security reasons.

This patch is based on Fedora's FreeImage-3.17.0_unbundle patch.
---
 Source/FreeImage.h |  9 -
 Source/FreeImage/J2KHelper.cpp |  2 +-
 Source/FreeImage/PluginEXR.cpp | 20 +-
 Source/FreeImage/PluginG3.cpp  |  9 +++--
 Source/FreeImage/PluginJ2K.cpp |  2 +-
 Source/FreeImage/PluginJP2.cpp |  2 +-
 Source/FreeImage/PluginJPEG.cpp|  6 +--
 Source/FreeImage/PluginJXR.cpp |  2 +-
 Source/FreeImage/PluginPNG.cpp |  4 +-
 Source/FreeImage/PluginRAW.cpp |  2 +-
 Source/FreeImage/PluginTIFF.cpp|  4 +-
 Source/FreeImage/PluginWebP.cpp|  8 ++--
 Source/FreeImage/ZLibInterface.cpp |  5 +--
 Source/Metadata/XTIFF.cpp  | 80 +++---
 genfipsrclist.sh   |  9 +
 gensrclist.sh  | 11 ++
 16 files changed, 85 insertions(+), 90 deletions(-)

diff --git a/Source/FreeImage.h b/Source/FreeImage.h
index e2d1c5a..ac35bec 100644
--- a/Source/FreeImage.h
+++ b/Source/FreeImage.h
@@ -473,6 +473,9 @@ FI_ENUM(FREE_IMAGE_DITHER) {
 	FID_BAYER16x16	= 6		//! Bayer ordered dispersed dot dithering (order 4 dithering matrix)
 };
 
+/* Debian: The JPEGTransform functions are deliberately disabled in our build
+   of FreeImage, since they require usage of the vendored copy of libjpeg. */
+#if 0
 /** Lossless JPEG transformations
 Constants used in FreeImage_JPEGTransform
 */
@@ -486,6 +489,7 @@ FI_ENUM(FREE_IMAGE_JPEG_OPERATION) {
 	FIJPEG_OP_ROTATE_180	= 6,	//! 180-degree rotation
 	FIJPEG_OP_ROTATE_270	= 7		//! 270-degree clockwise (or 90 ccw)
 };
+#endif
 
 /** Tone mapping operators.
 Constants used in FreeImage_ToneMapping.
@@ -1076,7 +1080,9 @@ DLL_API const char* DLL_CALLCONV FreeImage_TagToString(FREE_IMAGE_MDMODEL model,
 // --
 // JPEG lossless transformation routines
 // --
-
+/* Debian: The JPEGTransform functions are deliberately disabled in our build
+   of FreeImage, since they require usage of the vendored copy of libjpeg. */
+#if 0
 DLL_API BOOL DLL_CALLCONV FreeImage_JPEGTransform(const char *src_file, const char *dst_file, FREE_IMAGE_JPEG_OPERATION operation, BOOL perfect FI_DEFAULT(TRUE));
 DLL_API BOOL DLL_CALLCONV FreeImage_JPEGTransformU(const wchar_t *src_file, const wchar_t *dst_file, FREE_IMAGE_JPEG_OPERATION operation, BOOL perfect FI_DEFAULT(TRUE));
 DLL_API BOOL DLL_CALLCONV FreeImage_JPEGCrop(const char *src_file, const char *dst_file, int left, int top, int right, int bottom);
@@ -1085,6 +1091,7 @@ DLL_API BOOL DLL_CALLCONV FreeImage_JPEGTransformFromHandle(FreeImageIO* src_io,
 DLL_API BOOL DLL_CALLCONV FreeImage_JPEGTransformCombined(const char *src_file, const char *dst_file, FREE_IMAGE_JPEG_OPERATION operation, int* left, int* top, int* right, int* bottom, BOOL perfect FI_DEFAULT(TRUE));
 DLL_API BOOL DLL_CALLCONV FreeImage_JPEGTransformCombinedU(const wchar_t *src_file, const wchar_t *dst_file, FREE_IMAGE_JPEG_OPERATION operation, int* left, int* top, int* right, int* bottom, BOOL perfect FI_DEFAULT(TRUE));
 DLL_API BOOL DLL_CALLCONV FreeImage_JPEGTransformCombinedFromMemory(FIMEMORY* src_stream, FIMEMORY* dst_stream, FREE_IMAGE_JPEG_OPERATION operation, int* left, int* top, int* right, int* bottom, BOOL perfect FI_DEFAULT(TRUE));
+#endif
 
 
 // --
diff --git a/Source/FreeImage/J2KHelper.cpp b/Source/FreeImage/J2KHelper.cpp
index 1776c3b..538f1c5 100644
--- a/Source/FreeImage/J2KHelper.cpp
+++ b/Source/FreeImage/J2KHelper.cpp
@@ -21,7 +21,7 @@
 
 #include "FreeImage.h"
 #include "Utilities.h"
-#include "../LibOpenJPEG/openjpeg.h"
+#include 
 #include "J2KHelper.h"
 
 // --
diff --git a/Source/FreeImage/PluginEXR.cpp 

python-escript_5.0-2_source.changes ACCEPTED into unstable

[Debian FTP Masters]

Accepted:

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 05 Jan 2017 22:34:39 +0100
Source: python-escript
Binary: python-escript python-escript-mpi python3-escript python3-escript-mpi 
python-escript-doc
Architecture: source
Version: 5.0-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers 

Changed-By: Anton Gladky 
Description:
 python-escript - Escript/Finley finite elements Python2 system (with OpenMP)
 python-escript-doc - Documentation for Escript/Finley
 python-escript-mpi - Escript/Finley finite elements Python2 system (OpenMP + 
MPI)
 python3-escript - Escript/Finley finite elements Python3 system (with OpenMP)
 python3-escript-mpi - Escript/Finley finite elements Python3 system (OpenMP + 
MPI)
Closes: 848787
Changes:
 python-escript (5.0-2) unstable; urgency=medium
 .
   [ Joel Fenwick ]
   * [a75d1b9] Fix moved openmpi lib problem (Closes: #848787)
 .
   [ Anton Gladky ]
   * [b80952a] Apply cme fix dpkg.
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Thank you for your contribution to Debian.

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Bug#849593: Re: Bug#849593: libfftw3-single3: dependencies in shlibs file not tight enough

[James Cowgill]

Hi,

Please CC me, I only just saw this email when I checked on the bugreport.

On 30/12/16 17:17, Ghislain Vaillant wrote:
> CC'd to d-science,
> 
> On Fri, 30 Dec 2016 01:24:07 + James Cowgill  wrote:
>> On 30/12/16 00:50, Ghislain Vaillant wrote:
>> > On Thu, 29 Dec 2016 00:30:58 + James Cowgill  
>> > wrote:
>> >> On 29/12/16 00:02, Oleksandr Gavenko wrote:
>> >>> Package: ardour
>> >>> Version: 1:5.5.0~dfsg-1
>> >>> Severity: important
>> >>>
>> >>> Application is being crashing constantly with:
>> >>>
>> >>> bash# ardour5
>> >>> /usr/lib/ardour5/ardour-5.5.0: symbol lookup error:
>> /usr/lib/ardour5/ardour-5.5.0: undefined symbol:
>> fftwf_make_planner_thread_safe
>> >> [...]
>> >>> Versions of packages ardour depends on:
>> >> [...]
>> >>> ii  libfftw3-single3 3.3.4-2
>> >
>> > How come? Both testing and unstable have 3.3.5-1.
>>
>> I don't think that matters. Partial upgrades should work (and
>> derivatives may rely on it).
> 
> Next time, it would be nice to explain upfront that the new version of
> ardour you are trying to build may *conditionally* use new features
> introduced by FFTW 3.5:
> 
> https://github.com/Ardour/ardour/search?utf8=%E2%9C%93=fftwf_make_planner_thread_safe=Code

OK, but I don't think the conditionally part is relevant here. Any
package which uses the new function from FFTW 3.3.5 - conditionally or
not - has the potential to be broken by this bug. Since the condition is
evaluated at compile time, it will always be true in the ardour Debian
package in stretch/sid.

>> >> This package is the problem. The fftwf_make_planner_thread_safe
>> >> function is only present in fftw3 3.3.5 (so upgrading your package
>> >> would fix this). fftw3 should generate a stricter dependency so that
>> >> this doesn't happen.
>> >
>> > libfftw3-dev depends on libfftw3_single3 (=${binary:Version}).
>> >
>> > How is that not strict enough?
>>
>> I'm talking about the dependency from ardour to libfftw3_single3. The
>> dependency from libfftw3-dev doesn't matter here.
> 
> Maybe this could be *temporarily* fixed on ardour's end by requiring
> libfftw3-dev (>= 3.3.5) as a b-dep no?

No, changing the build-dependencies has no effect on the runtime
dependencies (well for the majority of packages at least).

The temporary fix would be to add a "Depends: libfftw3-single3 (>=
3.3.5)" to ardour, but that won't fix anyone else who wants to use
features from 3.3.5.

>> >> fftw3 maintainers: to fix this you either need to provide a symbols
>> >> file, or pass a suitable -V option to dh_makeshlibs so the shlibs file
>> >> contains a stricter dependency.
>> >
>> > Please be more explicit about the expected outcome (i.e. the stricter
>> > dependency you keep mentioning).
>>
>> Please read policy 8.6 which describes most of this more fully.
>>
>> The goal is for dpkg-shlibdeps to generate a dependency like
>> "libfftw3-single3 (>= 3.3.5)" for any package which uses
>> fftwf_make_planner_thread_safe. This is needed otherwise you may get a
>> linker error like ardour does, and it's is done by using the symbols or
>> shlibs systems as described in policy 8.6.
> 
> I am personally not familiar with the symbols stuff, so it would be up
> to somewhat from the team or yourself to provide a patch for this issue.

This is my attempt at fixing it the shlibs way (completely untested
however). A symbols file would be a lot more work but with more accurate
dependencies.

diff -ur a/debian/rules b/debian/rules
--- a/debian/rules  2016-10-03 17:12:31.0 +0100
+++ b/debian/rules  2017-01-05 17:35:18.123168915 +
@@ -168,7 +168,11 @@
dh_strip --dbg-package=libfftw3-dbg -a
dh_compress -a
dh_fixperms -a
-   dh_makeshlibs -a
+   dh_makeshlibs -plibfftw3-single3 -V'libfftw3-single3 (>= 3.3.5)'
+   dh_makeshlibs -plibfftw3-double3 -V'libfftw3-double3 (>= 3.3.5)'
+   dh_makeshlibs -plibfftw3-long3 -V'libfftw3-long3 (>= 3.3.5)'
+   dh_makeshlibs -plibfftw3-quad3 -V'libfftw3-quad3 (>= 3.3.5)'
+   dh_makeshlibs -a --remaining-packages
dh_installdeb -a
dh_shlibdeps -a
dh_gencontrol -a

Thanks,
James



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Bug#848137: [Dbconfig-common-devel] Bug#848137: problem with the upgrade of tango-db

[PICCA Frederic-Emmanuel]

Hello,

I discuss with the tango-db upstream and he found that

this one line fixed the problem, befrore doing the tango-db upgrade

UPDATE mysql.proc SET Definer='tango@localhost' where Db='tango';

Ideally it should be something like

UPDATE mysql.proc SET Definer='xxx' where Db='yyy';

where xxx is the dbuser and yyy the database name.à
It is true that for now my package works only if the database name is tango.


this is a limitation but I do not want to mix this into this bug report.

so can you help me write the right snipser at the right place in the debian 
scripts.

Or maybe I should just put the upgrade script og tango-db 9.2.5 intot eh 
dbadmin part with this fix at the end in order to have something consistant 
forthe next upgrade (tango 10)


Thanks for your help

Cheers

Frederic
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JOB RECRUITING

[Ksenia Demeter]

-- 

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r-cran-mcmcpack 1.3-8-1 MIGRATED to testing

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FYI: The status of the r-cran-mcmcpack source package
in Debian's testing distribution has changed.

  Previous version: (not in testing)
  Current version:  1.3-8-1

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siscone 2.0.6-2 MIGRATED to testing

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qwtplot3d 0.2.7+svn191-10.1 MIGRATED to testing

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r-cran-spatstat_1.48-0-1_amd64.changes ACCEPTED into unstable

[Debian FTP Masters]

Accepted:

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Source: r-cran-spatstat
Binary: r-cran-spatstat
Architecture: source amd64
Version: 1.48-0-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Team 

Changed-By: Andreas Tille 
Description:
 r-cran-spatstat - GNU R Spatial Point Pattern analysis, model-fitting, 
simulation,
Changes:
 r-cran-spatstat (1.48-0-1) unstable; urgency=medium
 .
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   * debhelper 10
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r-cran-spatstat_1.48-0.orig.tar.gz
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r-cran-spatstat_1.48-0-1.debian.tar.xz
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r-cran-spatstat-dbgsym_1.48-0-1_amd64.deb
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r-cran-spatstat_1.48-0-1_amd64.buildinfo
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Thank you for your contribution to Debian.

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r-cran-jsonlite_1.2-1_amd64.changes ACCEPTED into unstable

[Debian FTP Masters]

Accepted:

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 05 Jan 2017 17:47:10 +0100
Source: r-cran-jsonlite
Binary: r-cran-jsonlite
Architecture: source amd64
Version: 1.2-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers 

Changed-By: Andreas Tille 
Description:
 r-cran-jsonlite - Robust, High Performance JSON Parser and Generator for R
Changes:
 r-cran-jsonlite (1.2-1) unstable; urgency=medium
 .
   * New upstream version
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r-cran-jsonlite_1.2-1.debian.tar.xz
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r-cran-jsonlite-dbgsym_1.2-1_amd64.deb
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r-cran-jsonlite_1.2-1.debian.tar.xz
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Thank you for your contribution to Debian.

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Processing of r-cran-spatstat_1.48-0-1_amd64.changes

[Debian FTP Masters]

r-cran-spatstat_1.48-0-1_amd64.changes uploaded successfully to localhost
along with the files:
  r-cran-spatstat_1.48-0-1.dsc
  r-cran-spatstat_1.48-0.orig.tar.gz
  r-cran-spatstat_1.48-0-1.debian.tar.xz
  r-cran-spatstat-dbgsym_1.48-0-1_amd64.deb
  r-cran-spatstat_1.48-0-1_amd64.buildinfo
  r-cran-spatstat_1.48-0-1_amd64.deb

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Processing of r-cran-plotrix_3.6-4-1_amd64.changes

[Debian FTP Masters]

r-cran-plotrix_3.6-4-1_amd64.changes uploaded successfully to localhost
along with the files:
  r-cran-plotrix_3.6-4-1.dsc
  r-cran-plotrix_3.6-4.orig.tar.gz
  r-cran-plotrix_3.6-4-1.debian.tar.xz
  r-cran-plotrix_3.6-4-1_all.deb
  r-cran-plotrix_3.6-4-1_amd64.buildinfo

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Processed: Re: forge: FTBFS on multiple architectures

[Debian Bug Tracking System]

Processing control commands:

> block -1 by 850277
Bug #850243 [src:forge] forge: FTBFS on multiple architectures
850243 was not blocked by any bugs.
850243 was not blocking any bugs.
Added blocking bug(s) of 850243: 850277

-- 
850243: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=850243
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems

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Bug#850277: src:glm: CMake detection fails on !x64

[Ghislain Antony Vaillant]

Package: src:glm
Severity: important

Dear Maintainer,

Following the recent RC bug affecting src:forge [1], it is now clear
that there is an issue with the CMake detection of glm (and potentially
other arch-indep packages, like gli) on non 64-bit platforms.

Any attempt to call `find_package(glm REQUIRED)` produces the following
error:

```
Could not find a configuration file for package "glm" that is
compatible with requested version "".

The following configuration files were considered but not accepted:

/usr/lib/cmake/glm/glmConfig.cmake, version: 0.9.8 (64bit)
```

[1] https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=850243

Best regards,
Ghis


-- System Information:
Debian Release: stretch/sid
  APT prefers testing
  APT policy: (900, 'testing'), (300, 'unstable')
Architecture: amd64 (x86_64)

Kernel: Linux 4.8.0-2-amd64 (SMP w/8 CPU cores)
Locale: LANG=en_GB.UTF-8, LC_CTYPE=en_GB.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)

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r-cran-pbdzmq_0.2.5+dfsg-1_amd64.changes ACCEPTED into unstable

[Debian FTP Masters]

Accepted:

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 05 Jan 2017 16:21:10 +0100
Source: r-cran-pbdzmq
Binary: r-cran-pbdzmq
Architecture: source amd64
Version: 0.2.5+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers 

Changed-By: Andreas Tille 
Description:
 r-cran-pbdzmq - R bindings for ZeroMQ from the pbdR project
Changes:
 r-cran-pbdzmq (0.2.5+dfsg-1) unstable; urgency=medium
 .
   * Team upload
 .
   [ Gordon Ball ]
   * New upstream release.
 .
   [ Andreas Tille ]
   * debhelper 10
   * d/watch: version=4
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Thank you for your contribution to Debian.

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Processing of r-cran-pbdzmq_0.2.5+dfsg-1_amd64.changes

[Debian FTP Masters]

r-cran-pbdzmq_0.2.5+dfsg-1_amd64.changes uploaded successfully to localhost
along with the files:
  r-cran-pbdzmq_0.2.5+dfsg-1.dsc
  r-cran-pbdzmq_0.2.5+dfsg.orig.tar.gz
  r-cran-pbdzmq_0.2.5+dfsg-1.debian.tar.xz
  r-cran-pbdzmq-dbgsym_0.2.5+dfsg-1_amd64.deb
  r-cran-pbdzmq_0.2.5+dfsg-1_amd64.buildinfo
  r-cran-pbdzmq_0.2.5+dfsg-1_amd64.deb

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Bug#835014: marked as done (Updating the fenics Uploaders list)

[Debian Bug Tracking System]

Your message dated Thu, 05 Jan 2017 13:33:31 +
with message-id 
and subject line Bug#835014: fixed in fenics 1:2016.2.0.1
has caused the Debian Bug report #835014,
regarding Updating the fenics Uploaders list
to be marked as done.

This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.

(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)


-- 
835014: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=835014
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: fenics
Version: 1:1.5.0.1
Severity: minor
User: m...@qa.debian.org
Usertags: mia-teammaint

Christophe Prud'homme  has not been working on
the fenics package for quite some time.

We are tracking their status in the MIA team and would like to ask you
to remove them from the Uploaders list of the package so we can close
that part of the file.

(If the person is listed as Maintainer, what we are asking is to please
step in as a new maintainer.)

Thanks.
--- End Message ---
--- Begin Message ---
Source: fenics
Source-Version: 1:2016.2.0.1

We believe that the bug you reported is fixed in the latest version of
fenics, which is due to be installed in the Debian FTP archive.

A summary of the changes between this version and the previous one is
attached.

Thank you for reporting the bug, which will now be closed.  If you
have further comments please address them to 835...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Johannes Ring  (supplier of updated fenics package)

(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmas...@ftp-master.debian.org)


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Hash: SHA256

Format: 1.8
Date: Thu, 05 Jan 2017 14:14:32 +0100
Source: fenics
Binary: fenics
Architecture: source
Version: 1:2016.2.0.1
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Team 

Changed-By: Johannes Ring 
Description:
 fenics - Automated Solution of Differential Equations
Closes: 835014
Changes:
 fenics (1:2016.2.0.1) unstable; urgency=medium
 .
   * debian/control:
 - Update Depends field to DOLFIN 2016.2.0, FFC 2016.2.0, FIAT
   2016.2.0, Instant 2016.2.0 and UFL 2016.2.0.
 - Add python-dijitso to Depends.
 - Remove Christophe Prud'homme from Uploaders (closes: #835014).
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fenics_2016.2.0.1_source.changes ACCEPTED into unstable

[Debian FTP Masters]

Accepted:

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 05 Jan 2017 14:14:32 +0100
Source: fenics
Binary: fenics
Architecture: source
Version: 1:2016.2.0.1
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Team 

Changed-By: Johannes Ring 
Description:
 fenics - Automated Solution of Differential Equations
Closes: 835014
Changes:
 fenics (1:2016.2.0.1) unstable; urgency=medium
 .
   * debian/control:
 - Update Depends field to DOLFIN 2016.2.0, FFC 2016.2.0, FIAT
   2016.2.0, Instant 2016.2.0 and UFL 2016.2.0.
 - Add python-dijitso to Depends.
 - Remove Christophe Prud'homme from Uploaders (closes: #835014).
Checksums-Sha1:
 2ee0dddfa81ebe4aaf423e98a2e169e3b4fb5d1d 1727 fenics_2016.2.0.1.dsc
 fc3c809aa4f21d2a23fab609c65d75e4206a5e19 2792 fenics_2016.2.0.1.tar.xz
Checksums-Sha256:
 23cace012f21eff509917cf358b5fab136c7f271e236a3eab84c30f51a3fcd5e 1727 
fenics_2016.2.0.1.dsc
 c4c3b3822d990ee7b3341c6dc3665b926cc3876b914c4c279601174d93f0 2792 
fenics_2016.2.0.1.tar.xz
Files:
 28cae6168c385d6a8eaf35122f7d2da8 1727 math extra fenics_2016.2.0.1.dsc
 fdec4ca9eb77b23001447951b21455be 2792 math extra fenics_2016.2.0.1.tar.xz

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Processing of fenics_2016.2.0.1_source.changes

[Debian FTP Masters]

fenics_2016.2.0.1_source.changes uploaded successfully to localhost
along with the files:
  fenics_2016.2.0.1.dsc
  fenics_2016.2.0.1.tar.xz

Greetings,

Your Debian queue daemon (running on host usper.debian.org)

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Processed: slepc: FTBFS: Unable to link with PETSc

[Debian Bug Tracking System]

Processing commands for cont...@bugs.debian.org:

> found 802706 3.7.3+dfsg1-3
Bug #802706 {Done: Drew Parsons } [src:slepc] slepc: 
FTBFS: Unable to link with PETSc
Marked as found in versions slepc/3.7.3+dfsg1-3 and reopened.
> thanks
Stopping processing here.

Please contact me if you need assistance.
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Bug#802706: slepc: FTBFS: Unable to link with PETSc

[Santiago Vila]

found 802706 3.7.3+dfsg1-3
thanks

Hi.

Sorry for the reopening but this is happening again in stretch.
(I built this package 200 times, and it failed 200 times).

Build logs available here:

https://people.debian.org/~sanvila/build-logs/slepc/

Thanks.

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Processed: unarchive

[Debian Bug Tracking System]

Processing commands for cont...@bugs.debian.org:

> unarchive 802706
Bug #802706 {Done: Drew Parsons } [src:slepc] slepc: 
FTBFS: Unable to link with PETSc
Unarchived Bug 802706
>
End of message, stopping processing here.

Please contact me if you need assistance.
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COMMENT ALLEZ VOUS?

[COMPAGNIE HEINEKEN BEER]

-- 

Nous avons le Plaisir de vous annoncer que lors de LA LEAGUE DES


CHAMPIONS 2016 la Compagnie HEINEKEN BEER a effectué un tirage au sort sur

les adresses mails et votre adresse Émail a été retenue par sélection

informatique et vous faites donc partie des heureux gagnants de 
l'année

2016 de la Compagnie Heineken Beer supporter officielle de LA LEAGUE DES

CHAMPIONS, en partenariat avec la FIFA et les institutions financières,

votre adresse e-mail a été tiré au sort parmi tant et vous êtes

l'heureux(se) gagnant(e) du 3ème prix de la Promotion HEINEKEN LOTERIE

PRIZE. 

1er Prix: " 250.000 d'euros et un voyage à Hawaï " 
2ème Prix: "

150.000 euros " 
3ème Prix: " 60.000 euros " 
4ème Prix: " 30.000 euros "


5ème Prix: " 20.000 euros " 

Votre N° GAGNANT est le " HESAS0082147PUYHK

" Vous devez garder jalousement ce code parce qu'on aura besoin de votre

code après votre confirmation. 

La réclamation de votre prix se fera

auprès du maître PIERRE MALLET, l'huissier qui a supervisé la LOTERIE

HEINEKEN PRIZE. 
Vous devez complétez le formulaire ci-dessous et l'adressé

à l'huissier qui a supervisé la LOTERIE (Me PIERRE MALLET) à l'émail :

maitremalletpie...@diplomats.com

Nom

: 
Prénom

:. 
Adresse E-mail

: 
Pays

:... 
Age

: 
Profession

:. 
Sexe

:... 
N° de Téléphone

: 

Merci de nous contacter le plus

vite possible pour la réclamation de votre gain sur:

maitremalletpie...@diplomats.com

Très chaleureusement, 

LA COMPAGNIE

HEINEKEN BEER 

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Bug#848137: problem with the upgrade of tango-db

[Andreas Beckmann]

On 2017-01-04 21:55, Paul Gevers wrote:
> Hi Frederic-Emmanuel, Andreas,
> 
> @Andreas, am I correct in the assumption that jessie to stretch with
> tango-db was fine until MariaDB became the default? Or was this
> migration with tango-db just never tested before? Have you seen other
> dbconfig-common dependent packages fail since MariaDB became default (or
> maybe since dbconfig-common 2.0.5 (26-08-2016)?

I can't remember the details right now, but it is possible that this
started to fail after the mariadb switch (which is a non-trivial thing
to test with piuparts). I could try to find some older logs ...
And I don't remember any other package having a similar issue.

I needed, I could do further checks (or log lookup) next week.


Andreas

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Bug#850243: forge: FTBFS on multiple architectures

[Ghislain Vaillant]

Now CC'd to the Debian CMake Team

On 05/01/17 12:26, Ghislain Vaillant wrote:

CC'd  the Debian CMake Team, who might be able to help.

On 05/01/17 10:48, Ghislain Vaillant wrote:

CC'd to the src:glm maintainer,

On Thu, 05 Jan 2017 10:37:06 + Ghislain Antony Vaillant
 wrote:

Source: forge
Version: 0.9.2-2
Severity: serious
Justification: fails to build from source (but built successfully in
the past)

Dear Maintainer,

Since the latest update of the packaging, src:forge fails to build due
to configuration error whilst looking for glm. Multiple architectures
are affected, including major ones such as i386 or armhf / armel [1].

[1] https://buildd.debian.org/status/logs.php?pkg=forge=0.9.2-2

Ghis


-- System Information:
Debian Release: stretch/sid
  APT prefers testing
  APT policy: (500, 'testing')
Architecture: amd64 (x86_64)

Kernel: Linux 4.8.0-2-amd64 (SMP w/4 CPU cores)
Locale: LANG=en_GB.UTF-8, LC_CTYPE=en_GB.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)


Hi Guus, could you have a look at this please?

It looks like it is due to a regression in glm introduced in 0.9.8.3
compared to 0.9.8.1. The CMake detection works correctly for amd64 but
not i386.

The bug only shows up now because src:forge used to silently download a
copy of glm if a system version were not found. I have corrected this
behaviour and pushed a new version of the packaging, which now triggers
the CMake detection problem.

Ghis


Alright, this one is a bit tricky. Looking at the diff between 0.9.8.1
and 0.9.8.3:

```
diff --git a/CMakeLists.txt b/CMakeLists.txt
index b7df09f..253eee5 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -164,7 +164,7 @@ set(GLM_INSTALL_CONFIGDIR
"${CMAKE_INSTALL_LIBDIR}/cmake/glm")
 install(DIRECTORY glm DESTINATION ${CMAKE_INSTALL_INCLUDEDIR})

 write_basic_package_version_file(
-"${CMAKE_CURRENT_BINARY_DIR}/glmVersion.cmake"
+"${CMAKE_CURRENT_BINARY_DIR}/glmConfigVersion.cmake"
 VERSION ${GLM_VERSION}
 COMPATIBILITY AnyNewerVersion
 )
@@ -188,7 +188,7 @@ configure_package_config_file(
 install(
 FILES

"${CMAKE_CURRENT_BINARY_DIR}/${GLM_INSTALL_CONFIGDIR}/glmConfig.cmake"
-"${CMAKE_CURRENT_BINARY_DIR}/glmVersion.cmake"
+"${CMAKE_CURRENT_BINARY_DIR}/glmConfigVersion.cmake"
 DESTINATION ${GLM_INSTALL_CONFIGDIR}
 )
```

It looks like the glm version lookup did not work before (because the
version file was wrongly named) and has been fixed in the most recent
release.

Now if we inspect the content of glmConfigVersion.cmake, we find the
following code, which I believe to be our culprit:

```
# check that the installed version has the same 32/64bit-ness as the one
which is currently searching:
if(NOT CMAKE_SIZEOF_VOID_P STREQUAL "8")
   math(EXPR installedBits "8 * 8")
   set(PACKAGE_VERSION "${PACKAGE_VERSION} (${installedBits}bit)")
   set(PACKAGE_VERSION_UNSUITABLE TRUE)
endif()
```

Hence the following outcome during the build in src:forge for any 32-bit
architecture:

```
CMake Error at src/backend/opengl/CMakeLists.txt:17 (FIND_PACKAGE):
  Could not find a configuration file for package "glm" that is compatible
  with requested version "".

  The following configuration files were considered but not accepted:

/usr/lib/cmake/glm/glmConfig.cmake, version: 0.9.8 (64bit)
```

So the question is how to instruct CMake to produce a ConfigVersion file
without the above bit-ness check?

Ghis


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Bug#850243: forge: FTBFS on multiple architectures

[Ghislain Vaillant]

CC'd  the Debian CMake Team, who might be able to help.

On 05/01/17 10:48, Ghislain Vaillant wrote:

CC'd to the src:glm maintainer,

On Thu, 05 Jan 2017 10:37:06 + Ghislain Antony Vaillant
 wrote:

Source: forge
Version: 0.9.2-2
Severity: serious
Justification: fails to build from source (but built successfully in
the past)

Dear Maintainer,

Since the latest update of the packaging, src:forge fails to build due
to configuration error whilst looking for glm. Multiple architectures
are affected, including major ones such as i386 or armhf / armel [1].

[1] https://buildd.debian.org/status/logs.php?pkg=forge=0.9.2-2

Ghis


-- System Information:
Debian Release: stretch/sid
  APT prefers testing
  APT policy: (500, 'testing')
Architecture: amd64 (x86_64)

Kernel: Linux 4.8.0-2-amd64 (SMP w/4 CPU cores)
Locale: LANG=en_GB.UTF-8, LC_CTYPE=en_GB.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)


Hi Guus, could you have a look at this please?

It looks like it is due to a regression in glm introduced in 0.9.8.3
compared to 0.9.8.1. The CMake detection works correctly for amd64 but
not i386.

The bug only shows up now because src:forge used to silently download a
copy of glm if a system version were not found. I have corrected this
behaviour and pushed a new version of the packaging, which now triggers
the CMake detection problem.

Ghis


Alright, this one is a bit tricky. Looking at the diff between 0.9.8.1 
and 0.9.8.3:


```
diff --git a/CMakeLists.txt b/CMakeLists.txt
index b7df09f..253eee5 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -164,7 +164,7 @@ set(GLM_INSTALL_CONFIGDIR 
"${CMAKE_INSTALL_LIBDIR}/cmake/glm")

 install(DIRECTORY glm DESTINATION ${CMAKE_INSTALL_INCLUDEDIR})

 write_basic_package_version_file(
-"${CMAKE_CURRENT_BINARY_DIR}/glmVersion.cmake"
+"${CMAKE_CURRENT_BINARY_DIR}/glmConfigVersion.cmake"
 VERSION ${GLM_VERSION}
 COMPATIBILITY AnyNewerVersion
 )
@@ -188,7 +188,7 @@ configure_package_config_file(
 install(
 FILES

"${CMAKE_CURRENT_BINARY_DIR}/${GLM_INSTALL_CONFIGDIR}/glmConfig.cmake"
-"${CMAKE_CURRENT_BINARY_DIR}/glmVersion.cmake"
+"${CMAKE_CURRENT_BINARY_DIR}/glmConfigVersion.cmake"
 DESTINATION ${GLM_INSTALL_CONFIGDIR}
 )
```

It looks like the glm version lookup did not work before (because the 
version file was wrongly named) and has been fixed in the most recent 
release.


Now if we inspect the content of glmConfigVersion.cmake, we find the 
following code, which I believe to be our culprit:


```
# check that the installed version has the same 32/64bit-ness as the one 
which is currently searching:

if(NOT CMAKE_SIZEOF_VOID_P STREQUAL "8")
   math(EXPR installedBits "8 * 8")
   set(PACKAGE_VERSION "${PACKAGE_VERSION} (${installedBits}bit)")
   set(PACKAGE_VERSION_UNSUITABLE TRUE)
endif()
```

Hence the following outcome during the build in src:forge for any 32-bit 
architecture:


```
CMake Error at src/backend/opengl/CMakeLists.txt:17 (FIND_PACKAGE):
  Could not find a configuration file for package "glm" that is compatible
  with requested version "".

  The following configuration files were considered but not accepted:

/usr/lib/cmake/glm/glmConfig.cmake, version: 0.9.8 (64bit)
```

So the question is how to instruct CMake to produce a ConfigVersion file 
without the above bit-ness check?


Ghis

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Bug#850229: dune-grid: FTBFS (not enough slots available)

[Ansgar Burchardt]

On Thu, 2017-01-05 at 12:59 +0200, Graham Inggs wrote:
> On 05/01/2017 12:05, Santiago Vila wrote:
> > Status:FAILED
> > Output:
> >    --
> > 
> >    There are not enough slots available in the system to
> > satisfy the 2 slots
> >    that were requested by the application:
> >  test-yaspgrid-yaspfactory-1d
> > 
> >    Either request fewer slots for your application, or make
> > more slots available
> >    for use.
> >    --
> > 
> 
> I started seeing similar errors in other MPI applications since the 
> upload of openmpi 2.0.2~ to unstable.
> 
> The solution was to add --oversubscribe to the mpirun command line, 

Yes, it looks like OpenMPI changed the default :-/

> The bug should be reproducible with sbuild on a single CPU virtual
> > machine.
> > It always fail for me (I tried 10 times in different autobuilders).
> 
> If I understand correctly, --oversubscribe should be needed in your
> case where you have fewer CPUs than the number of processes
> requested, but I was seeing the errors even when there were more than
> enough CPUs available.

On my laptop with 4 cores + HT (so 8 threads), I see `mpirun` complain
once I start more than 4 processes, i.e. more processes than real
cores.  Did you count threads or cores when you tried?

Ansgar

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Bug#848859: FTBFS randomly (failing tests)

[Ole Streicher]

On 05.01.2017 11:36, Santiago Vila wrote:
> On Thu, Jan 05, 2017 at 11:06:50AM +0100, Ole Streicher wrote:
>> Hi all,
>>
>> On 04.01.2017 20:57, Santiago Vila wrote:
>>> I still want to build all packages and have 0 or 1 failures,
>>> so in this case the probability should be 1/50/2, i.e. 1%.
>>>
>>> I think this is still feasible.
>>
>> My experience is that the buildds that are currently in use provide more
>> build problems than the packages themself. BTW, why don't you count this
>> as RC?
> 
> Can you clarify the question? I don't understand what you refer exactly.

It does not make sense to have 100% reliability on the package itself to
build but only 95% on the buildds. If we want to have reliability, then
every chain member counts -- and the weakest one in the moment for me
does not seem to be the packages themselves, but the buildd setups we
currently have. So, if you consider unreliable package builds as an RC
problem, you should also consider the unreliable buildd setup as an RC
problem.

>>> But as far as there are people in this project who consider that a
>>> package which FTBFS on single-CPU machines more than 50% of the time
>>> is ok "because it does not usually fail in buildd.debian.org",
>>> we are doomed.
>>
>> We have 10 archs, and with a 50% chance of failure you will not get any
>> version built. Even when the buildds try it two or three times.
> 
> It's actually more subtle than that.
> 
> The package may be ready to be built on multi-core machines, but not on
> single-core machines. So, the probability that I measure (greater than 50%),
> might not be the same as the probability on official autobuilders.

Ususally it is the other way around: packages build fine
single-threaded, but don't do so on many threads (or CPUs). At the end
it it also depends on how many CPUs you actually get for the build -- if
there are some packages built in parallel, the result may be as for a
single CPU.

> Then there is the other subtle thing: The package may be Arch:all, in
> which case a 50% of probability (this time independent on the number
> of CPUs) may go unnoticed very easily, either because the maintainer
> uploaded the .deb him/herself, or, if the maintainer uploaded
> in source-only form, we can just be lucky for that time.

I would favour much to ignore any prebuilt binaries and to re-build
everything anyway.

> We provide software which is free to be modified. If people is going
> to modify it and then it fails because the package only builds ok in
> buildd.debian.org, then we are removing one of the essential freedoms,
> the freedom to modify it, and the package becomes de-facto non-free,
> even if we still distribute it in main.

First, the multi-CPU buildd setup is free (as in speech), isn't it? So,
depending on this does not make anything non-free. I don't see why the
dependency on a specific build environment would change the DFSG
freeness at all (as long as the build environment itself is DFSG free).

Then, we are speaking about random failures. If you use a single-core
and see a build failure, you can just pragmatically repeat it.

Sorry, I don't see why this would restrict DFSG freedom here.

Best regards

Ole

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Bug#850229: dune-grid: FTBFS (not enough slots available)

[Graham Inggs]

Hi

On 05/01/2017 12:05, Santiago Vila wrote:

Status:FAILED
Output:
   
--
   There are not enough slots available in the system to satisfy the 2 
slots
   that were requested by the application:
 test-yaspgrid-yaspfactory-1d

   Either request fewer slots for your application, or make more slots 
available
   for use.
   
--


I started seeing similar errors in other MPI applications since the 
upload of openmpi 2.0.2~ to unstable.


The solution was to add --oversubscribe to the mpirun command line, e.g. 
[1].



The bug should be reproducible with sbuild on a single CPU virtual machine.
It always fail for me (I tried 10 times in different autobuilders).


If I understand correctly, --oversubscribe should be needed in your case 
where you have fewer CPUs than the number of processes requested, but I 
was seeing the errors even when there were more than enough CPUs available.


Regards
Graham


[1] 
https://anonscm.debian.org/cgit/debian-science/packages/lammps.git/commit/?id=64c465da9036114cec9220ebe58bd264b974b694


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Bug#850243: forge: FTBFS on multiple architectures

[Ghislain Vaillant]

CC'd to the src:glm maintainer,

On Thu, 05 Jan 2017 10:37:06 + Ghislain Antony Vaillant 
 wrote:

Source: forge
Version: 0.9.2-2
Severity: serious
Justification: fails to build from source (but built successfully in the past)

Dear Maintainer,

Since the latest update of the packaging, src:forge fails to build due
to configuration error whilst looking for glm. Multiple architectures
are affected, including major ones such as i386 or armhf / armel [1].

[1] https://buildd.debian.org/status/logs.php?pkg=forge=0.9.2-2

Ghis


-- System Information:
Debian Release: stretch/sid
  APT prefers testing
  APT policy: (500, 'testing')
Architecture: amd64 (x86_64)

Kernel: Linux 4.8.0-2-amd64 (SMP w/4 CPU cores)
Locale: LANG=en_GB.UTF-8, LC_CTYPE=en_GB.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)


Hi Guus, could you have a look at this please?

It looks like it is due to a regression in glm introduced in 0.9.8.3 
compared to 0.9.8.1. The CMake detection works correctly for amd64 but 
not i386.


The bug only shows up now because src:forge used to silently download a 
copy of glm if a system version were not found. I have corrected this 
behaviour and pushed a new version of the packaging, which now triggers 
the CMake detection problem.


Ghis

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Bug#850243: forge: FTBFS on multiple architectures

[Ghislain Antony Vaillant]

Source: forge
Version: 0.9.2-2
Severity: serious
Justification: fails to build from source (but built successfully in the past)

Dear Maintainer,

Since the latest update of the packaging, src:forge fails to build due
to configuration error whilst looking for glm. Multiple architectures
are affected, including major ones such as i386 or armhf / armel [1].

[1] https://buildd.debian.org/status/logs.php?pkg=forge=0.9.2-2

Ghis


-- System Information:
Debian Release: stretch/sid
  APT prefers testing
  APT policy: (500, 'testing')
Architecture: amd64 (x86_64)

Kernel: Linux 4.8.0-2-amd64 (SMP w/4 CPU cores)
Locale: LANG=en_GB.UTF-8, LC_CTYPE=en_GB.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)

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forge_0.9.2-2_amd64.changes ACCEPTED into unstable

[Debian FTP Masters]

Accepted:

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 04 Jan 2017 20:42:05 +
Source: forge
Binary: libforge0 libforge-dev forge-doc
Architecture: source all amd64
Version: 0.9.2-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers 

Changed-By: Ghislain Antony Vaillant 
Description:
 forge-doc  - documentation for forge
 libforge-dev - development files for forge
 libforge0  - high-performance OpenGL visualization
Changes:
 forge (0.9.2-2) unstable; urgency=medium
 .
   * Cherry-pick upstream patch facilitating builds with system libraries.
 New patch 0003-Consistent-definition-of-USE_SYSTEM-flags-for-glbind.patch
   * Force use of system dependencies via the USE_SYSTEM flags.
 Reason: fixes FTBFS during reproducible builds
   * Add missing build dependency on OpenGL.
 Reason: fixes FTBFS on sparc64
   * Add support for the nodoc build profile.
   * Add patch fixing spelling errors reported by Lintian.
 New patch 0004-Fix-spelling-errors.patch
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Files:
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 602d50375d581bd5c41cabd14dca86fd 6040 libs optional forge_0.9.2-2.debian.tar.xz
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 b98e9959e90f99b806783fd1549e445d 9022 libs optional 
forge_0.9.2-2_amd64.buildinfo
 787c5e8104916194c729709852df0efd 17836 libdevel optional 
libforge-dev_0.9.2-2_amd64.deb
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libforge0-dbgsym_0.9.2-2_amd64.deb
 c8ba7a2ea74da1f9208b8549e7e028aa 124222 libs optional 
libforge0_0.9.2-2_amd64.deb

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Thank you for your contribution to Debian.

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Processing of forge_0.9.2-2_amd64.changes

[Debian FTP Masters]

forge_0.9.2-2_amd64.changes uploaded successfully to localhost
along with the files:
  forge_0.9.2-2.dsc
  forge_0.9.2-2.debian.tar.xz
  forge-doc_0.9.2-2_all.deb
  forge_0.9.2-2_amd64.buildinfo
  libforge-dev_0.9.2-2_amd64.deb
  libforge0-dbgsym_0.9.2-2_amd64.deb
  libforge0_0.9.2-2_amd64.deb

Greetings,

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