Bug#731211: aster: new upstream release, work in progress

2014-03-26 Thread Andrea Palazzi
Hi,

sorry for the late asnwer, I've been busy in these days.

So, the package is good, the only thing that should be changed, if we want to 
upload the package as soon as possible, is that with this packaging, 
code-aster-mpi-engine should depend on code-aster and not vice-versa.
 
On the other hand, I think that the packaging scheme should stay as it was 
previously: the 
code-aster package was originally meant to be a meta-package, just to 
allow to easlily install the whole thing with apt-get install 
code-aster; I think we should still follow this concept. So, move all 
arch-independent files (mostly python) in another package, like 
code-aster-common; move the elements file and other arch-dependant files common 
to the serial and parallel version to another package code-aster-elements, and 
leave the code-aster package as a metapackage.
Suggestions on better package scheme ( and naming ) naming are welcome :)

Other issues/enhancements/wishes:


- the code-aster package creates both /usr/lib/aster an /usr/lib/codeaster; the 
latter seems to be used just for a symlink from ../../share/aster . It's just a 
leftover of the old packaging, or CA looks for files in this path?

Note however that code-aster-run puts some files under /usr/lib/codeaster, so 
we shoult ideally take also care of code-aster-run and code-aster-gui packages.

- In the process, I'd like also to switch from svn to git.


- as_run doesn't work out of the box: it relies on having informations about 
available versions in the file /etc/codeaster/aster ; the script 
update-codeaster-engines takes care of this, it should be run on 
postinst/postrm scripts of the code-aster-*-engine packages.

- provide also the serial version

- a simple script to run the test cases would be nice... the .comm file that 
was used for this purpose has been removed from upstream, or it's just me that 
can't find it?


- we should fix libmetis in one way or another, either by adapting the sources 
to libmetis 5.1.0 (the metis documentation says something about this process) 
or by changing the default renumerator from
 METIS to something other, like MD, so that it can be compatible with comm 
files that doesn't specify the renumerator to be used.


- 11.5 is already
 out

- and I'd like to provide also testing/unstable versions

So, considering that the actual packages are empty, I propose to fix the 
dependency and upload the packages, then start working on enhancong the package.

Bye
Andrea




Il Venerdì 21 Marzo 2014 10:09, Denis Laxalde denis.laxa...@logilab.fr ha 
scritto:
 
Hi,

Some other changes and Lintian warnings fixes:

- install the elements catalog in /usr/lib/aster as it is architecture 
dependent.
- install the Python library in code-aster binary as it is not tied to 
the underlying engine.


Regards.

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Bug#731211: aster: new upstream release, work in progress

2014-03-26 Thread Denis Laxalde

Hi,
Andrea Palazzi a écrit :

So, the package is good, the only thing that should be changed, if we
want to upload the package as soon as possible, is that with this
packaging, code-aster-mpi-engine should depend on code-aster and not
vice-versa.


I don't understand why we'd want this. With the current binary layout, 
code-aster (the Python library and elements catalog) cannot be used 
without an engine (the aster binary), whereas the engine could (in 
theory) be used without the code-aster Python library or elements 
catalog (although it wouldn't be more useful than a python interpreter).



On the other hand, I think that the packaging scheme should stay as it
was previously: the code-aster package was originally meant to be a
meta-package, just to allow to easlily install the whole thing with
apt-get install code-aster; I think we should still follow this concept.


Even if it's not a meta package anymore, the code-aster binary package 
still provides this feature.



So, move all arch-independent files (mostly python) in another package,
like code-aster-common; move the elements file and other arch-dependant
files common to the serial and parallel version to another package
code-aster-elements, and leave the code-aster package as a metapackage.
Suggestions on better package scheme ( and naming ) naming are welcome :)


I think this is over-design. Let's keep it simple, unless there's a real 
need to have something more complicated.



Other issues/enhancements/wishes:

- the code-aster package creates both /usr/lib/aster an
/usr/lib/codeaster; the latter seems to be used just for a symlink from
../../share/aster . It's just a leftover of the old packaging, or CA
looks for files in this path?
Note however that code-aster-run puts some files under
/usr/lib/codeaster, so we shoult ideally take also care of
code-aster-run and code-aster-gui packages.


This symlink is precisely here so that as_run (from code-aster-run 
package) can still be used when aster is installed in /usr/lib/aster 
(not /usr/lib/codeaster). Ultimately, astk's packaging should be updated 
in order not to need this, but I currently I no time to do this.



- In the process, I'd like also to switch from svn to git.


Not sure I get your point. It's already done.


- as_run doesn't work out of the box: it relies on having informations
about available versions in the file /etc/codeaster/aster ; the script
update-codeaster-engines takes care of this, it should be run on
postinst/postrm scripts of the code-aster-*-engine packages.


What does not work? AFAICT, it works: I can run 'as_run xxx.export' or 
some tests like 'as_run --test mtlp100a'.



- provide also the serial version

- a simple script to run the test cases would be nice... the .comm file
that was used for this purpose has been removed from upstream, or it's
just me that can't find it?



- we should fix libmetis in one way or another, either by adapting the
sources to libmetis 5.1.0 (the metis documentation says something about
this process) or by changing the default renumerator from METIS to
something other, like MD, so that it can be compatible with comm files
that doesn't specify the renumerator to be used.


The tree latter points would be nice, indeed.


- 11.5 is already out


And I updated the packaging for this version already.


- and I'd like to provide also testing/unstable versions


Again, let's keep it simple first.


Regards,
Denis

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Re: Trilinos packages

2014-03-26 Thread Nico Schlömer
 i suspect that the clean way would be (binary) packages for each library
 the trilinos source package contains.

I fully agree. Trilinos is structurally similar to Boost which does
provide a sophisticated install structure. Unfortunately, the Trilinos
build system is flawed in certain places that make it difficult to
take an automated approach to that. One example is that the
interdependencies of the subpackages aren't presented in a
machine-readable form. Although, I'm submitting patches to Trilinos to
address these issues, I would suggest to first go with a monolithic
package and split it up at a later point.

In the course of packaging Trilinos for Debian, I have identified
quite a number of bugs in Trilinos for which I maintain a little zoo
of patches, https://github.com/nschloe/trilinos-ubuntu/tree/master/patches.
Some of those have already made it upstream, and we'll have to see if
we can get in more of those before the next release freeze.

I'll keep you all posted.

Cheers,
Nico



On Tue, Mar 18, 2014 at 12:56 PM, Felix Salfelder fe...@salfelder.org wrote:
 On Tue, Mar 18, 2014 at 12:15:49PM +0100, Nico Schlömer wrote:
 A quick poll on the Trilinos package naming:
 Right now, we have libtrilinos, which triggers a
 package-name-doesnt-match-sonames warning since none of the Trilinos
 libraries is called libtrilinos.* (rather libepetra.*, libbelos.*,
 ...). This is similar to the libboost package which doesn't contain a
 library by the name libboost.* either.

 i suspect that the clean way would be (binary) packages for each library
 the trilinos source package contains. and maybe have a trilinos-dev
 metapackage that depends on all the lib*-dev packages. this will add up
 to some copy and paste work, and end up with a lot of packages... i
 don't know if it's worth the effort.

 fwiw, theres another source package that creates a heap of libraries.
 it is the old trilinos package [1]. here, all sonames are prefixed by
 libtrilinos_. looks like an alternative...

 On the other hand, a software very similar to Trilinos, PETSc, goes by
 the Debian name petsc.

 i cannot find a (binary) package called petsc. but there is (e.g.)
 libpetsc3.4.2, and it contains libpetsc.so.4.3.2. unkike trilinos, the
 petsc source package creates just one shared library. and afaics its
 soname matches the package name.

 hth
 felix

 [1] https://packages.debian.org/squeeze/amd64/libtrilinos/filelist

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Processing of glpk_4.53-2_amd64.changes

2014-03-26 Thread Debian FTP Masters
glpk_4.53-2_amd64.changes uploaded successfully to localhost
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Bug#741303: libfeel++1: libfeelpp.so.1.0.0 links with both GPL-licensed and GPL-incompatible libraries

2014-03-26 Thread Christophe Prud'homme
Dear Francesco Poli

What is the state of this bug ? any progress with respect to scotch
licensing ?

this is a really painful situation !

are petsc and all libraries (based on umfpack) related to this bug issues
marked for removal from testing ?

have you marked also octave with an RC bug ? it  uses suitesparse/umfpack
and scotch [1]
Basically all libraries/programs using suitesparse/umfpack should have this
bug, no ?
I think Libreoffice/Openoffice  are using suitesparse(and scotch) and glpk
so it should also have the RC bug.

I guess that the technical solution would be to get rid of umfpack but then
that would disrupt a lot of software !

 1. http://packages.qa.debian.org/o/octave.html

Best regards
C.


On Tue, Mar 11, 2014 at 12:05 AM, Francesco Poli (wintermute) 
invernom...@paranoici.org wrote:

 Package: libfeel++1
 Version: 1:0.95.0-final-2
 Severity: serious
 Justification: Policy 2.3
 User: debian-science-maintainers@lists.alioth.debian.org
 Usertags: scotch-license-issues

 Hello,
 the library /usr/lib/libfeelpp.so.1.0.0 links with:

   = libumfpack.so.5.6.2, which is under the GNU GPL v2 or later

   = libcholmod.so.2.1.2, which has parts under the GNU GPL v2 or later

   = libptscotch-5.1.so and libptscotcherr-5.1.so, which are released
  under the GPL-incompatible terms of the CeCILL-C v1.0 license

   = libpetsc.so.3.4.2 and libslepc.so.3.4.2, which, though not being
  under strong copyleft or under copyleft at all, link, in their
  turn, with the above three libraries...

   = libglpk.so.36, which is under the GNU GPL v3 or later

   = libgmsh.so.2, which is under the GNU GPL v2 or later (with some
  exceptions, but not regarding SCOTCH or CeCILL-C)

 This seems to mean that package libfeel++1 includes a file which
 links with both GPL-licensed and GPL-incompatible libraries.

 Please refer to the similar bug #740463 for some further details about
 the SCOTCH licensing issues.

 I have also noticed that package feel++-apps includes several files
 which link with the above mentioned combination of libraries.

 I think the possible solutions to the issue for feel++ are, in
 descending order of desirability:

  (A) SCOTCH copyright holders should be contacted and persuaded to
 re-license (or dual-license) it under GPLv2-or-later-compatible terms

  (B) SCOTCH should be substituted with a GPLv2-or-later-compatible
 replacement, if any is available (METIS seems to be at least
 GPLv3-or-later-compatible, see https://bugs.debian.org/740463#15 )

  (C) GPL-licensed library (such as UMFPACK and CHOLMOD, GLPK, Gmsh)
 copyright holders should be asked to relax the copyleft (for instance
 by switching to the LGPL v2.1) or add license exceptions that give
 permission to link their works with code released under CeCILL-C v1.0


 As said in other bug reports, the best solution is (A):
 I am thus renewing my call for help to push in the direction of
 {re|dual}-licensing SCOTCH under the GNU LGPL v2.1:
 please see https://bugs.debian.org/740463#5 for the full story.

 Thanks for your time!

 To unsubscribe from this group and stop receiving emails from it, send an
 email to feelpp-devel+unsubscr...@feelpp.org.




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Processing of aster_11.5.0+dfsg2-1_amd64.changes

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aster_11.5.0+dfsg2-1_amd64.changes uploaded successfully to localhost
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Alioth /git/debian-science/packages directory

2014-03-26 Thread Leopold Palomo-Avellaneda
Hi,

I'm thinking to package another piece of software under about robotics. When I 
have login to alioth and chdir to /git/debian-science/packages I have realised 
that:

$ ls -1  | grep .git | wc -l
425

so, we have 425 folders containing 425 git repos.

I thought that the packages from robotics blend could go to a folder (for 
instance robotics). So, my question is what do you think if we are moving the 
git repo to a folder with the name of the blend, or something that classify 
it?

It's just an idea... also for the robotics packages. It implies to create 
another version of the package with the vcs field updated.


Regards,

Leopold


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aster_11.5.0+dfsg2-1_amd64.changes ACCEPTED into unstable

2014-03-26 Thread Debian FTP Masters
Mapping sid to unstable.

Accepted:

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA1

Format: 1.8
Date: Wed, 26 Mar 2014 16:03:58 +0100
Source: aster
Binary: code-aster code-aster-mpi-engine code-aster-test
Architecture: source amd64 all
Version: 11.5.0+dfsg2-1
Distribution: sid
Urgency: low
Maintainer: Debian Science Team 
debian-science-maintainers@lists.alioth.debian.org
Changed-By: Denis Laxalde denis.laxa...@logilab.fr
Description: 
 code-aster - Code_Aster finite element program - metapackage
 code-aster-mpi-engine - Code_Aster finite element program - parallel binary
 code-aster-test - Code_Aster finite element program - test files and examples
Closes: 670842 703415 707940 713083 731211 740091
Changes: 
 aster (11.5.0+dfsg2-1) unstable; urgency=low
 .
   * New upstream release (Closes: #731211):
 - drop all previous patches that don't apply anymore;
 - add new ones to fix the build system configuration;
 - (most) test cases run fine (Closes: #670842);
 .
   * debian/control:
 - set myself as uploader;
 - adjust build dependencies:
   + code-aster-{run,gui} not needed,
   + use petsc-dev instead of libpetsc3.2-dev (Closes: #740091)
 .
   * debian/rules:
 - rewrite from scratch in order to account for the change of build system,
 upstream (waf is used now);
 - use dh_python2 instead of python-support;
 - only build the MPI version;
 .
   * Adjust .install files (Closes: #713083)
   * Drop .postrm/.postinst files (Closes: #703415, #707940)
 .
   * Unpack Waf binary, hence the +dfsg.
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Bug#670842: marked as done (code-aster-mpi-engine: can't run cases list)

2014-03-26 Thread Debian Bug Tracking System
Your message dated Wed, 26 Mar 2014 15:49:03 +
with message-id e1wsq4d-wm...@franck.debian.org
and subject line Bug#670842: fixed in aster 11.5.0+dfsg2-1
has caused the Debian Bug report #670842,
regarding code-aster-mpi-engine: can't run cases 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.)


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Contact ow...@bugs.debian.org with problems
---BeginMessage---

Package: code-aster-mpi-engine
Version: 10.6.0-1-4
Severity: normal

Dear Maintainer,
when I tried to run a test list (as those provided by code-aster-test) 
it claims about incorrect parameters.
I checked flash files (feti001a) and I could see the problem was in 
tpmax and memjeveux, that were missing.
It is because in export file created automatically when a list is 
provided, it doesn't write input files.
In fact if I add tpmax and memjeveux parameters in list export file, it 
stops beacause of NO_COMM_FILE.
Again, I checked flash file, and no .comm, nor .para, nor .mail file 
were written.
If I run the single test with an export file created by hand everything 
is ok.

Best regards,
Corrado

-- System Information:
Debian Release: wheezy/sid
  APT prefers testing
  APT policy: (990, 'testing'), (500, 'unstable')
Architecture: i386 (i686)

Kernel: Linux 2.6.32-5-686 (SMP w/1 CPU core)
Locale: LANG=it_IT, LC_CTYPE=it_IT (charmap=UTF-8) (ignored: LC_ALL set 
to it_IT.UTF-8)

Shell: /bin/sh linked to /bin/dash

Versions of packages code-aster-mpi-engine depends on:
ii  libblacs-mpi11.1-31
ii  libblas3gf [libblas.so.3gf]  1.2.20110419-2
ii  libc62.13-30
ii  libgfortran3 4.7.0-3
ii  libhdf5-openmpi-71.8.8-9
ii  liblapack3gf [liblapack.so.3gf]  3.3.1-1
ii  libmed1  3.0.3-3
ii  libmumps-ptscotch-4.10.0 4.10.0.dfsg-3
ii  libopenmpi1.31.4.3-2.1
ii  libptscotch-5.1  5.1.12b.dfsg-1
ii  libpython2.6 2.6.7-4
ii  libpython2.7 2.7.2-8
ii  libscalapack-mpi11.8.0-9
ii  libscotch-5.15.1.12b.dfsg-1
ii  libstdc++6   4.7.0-3
ii  omniidl  4.1.6-2
ii  zlib1g   1:1.2.6.dfsg-2

code-aster-mpi-engine recommends no packages.

Versions of packages code-aster-mpi-engine suggests:
ii  eficas 6.4.0-1-1
ii  gmsh   2.5.1~beta2~svn11845~dfsg-2
ii  grace  1:5.1.22-12+b1
ii  metis-edf  4.1-2-2

-- no debconf information



---End Message---
---BeginMessage---
Source: aster
Source-Version: 11.5.0+dfsg2-1

We believe that the bug you reported is fixed in the latest version of
aster, 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 670...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Denis Laxalde denis.laxa...@logilab.fr (supplier of updated aster 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)


-BEGIN PGP SIGNED MESSAGE-
Hash: SHA1

Format: 1.8
Date: Wed, 26 Mar 2014 16:03:58 +0100
Source: aster
Binary: code-aster code-aster-mpi-engine code-aster-test
Architecture: source amd64 all
Version: 11.5.0+dfsg2-1
Distribution: sid
Urgency: low
Maintainer: Debian Science Team 
debian-science-maintainers@lists.alioth.debian.org
Changed-By: Denis Laxalde denis.laxa...@logilab.fr
Description: 
 code-aster - Code_Aster finite element program - metapackage
 code-aster-mpi-engine - Code_Aster finite element program - parallel binary
 code-aster-test - Code_Aster finite element program - test files and examples
Closes: 670842 703415 707940 713083 731211 740091
Changes: 
 aster (11.5.0+dfsg2-1) unstable; urgency=low
 .
   * New upstream release (Closes: #731211):
 - drop all previous patches that don't apply anymore;
 - add new ones to fix the build system configuration;
 - (most) test cases run fine (Closes: #670842);
 .
   * debian/control:
 - set myself as uploader;
 - adjust build dependencies:
   + code-aster-{run,gui} not needed,
   + use petsc-dev instead of libpetsc3.2-dev (Closes: #740091)
 .
   * debian/rules:
 - rewrite from scratch in order to 

Bug#731211: marked as done (aster: new upstream release, work in progress)

2014-03-26 Thread Debian Bug Tracking System
Your message dated Wed, 26 Mar 2014 15:49:03 +
with message-id e1wsq4d-wg...@franck.debian.org
and subject line Bug#731211: fixed in aster 11.5.0+dfsg2-1
has caused the Debian Bug report #731211,
regarding aster: new upstream release, work in progress
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.)


-- 
731211: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=731211
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
---BeginMessage---
Source: aster
Severity: wishlist

Hi,

There's a new stable release of Aster available: 11.4.

I am currently working on adapting the current packaging for this
release. The build system changed (waf inside now), so this requires a
bit of work.

Regards,
Denis

-- 
Denis Laxalde
Logilab http://www.logilab.fr

-- System Information:
Debian Release: 7.2
  APT prefers stable-updates
  APT policy: (500, 'stable-updates'), (500, 'stable'), (1, 'experimental')
Architecture: amd64 (x86_64)
Foreign Architectures: i386

Kernel: Linux 3.2.0-4-amd64 (SMP w/2 CPU cores)
Locale: LANG=fr_FR.utf8, LC_CTYPE=fr_FR.utf8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
---End Message---
---BeginMessage---
Source: aster
Source-Version: 11.5.0+dfsg2-1

We believe that the bug you reported is fixed in the latest version of
aster, 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 731...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Denis Laxalde denis.laxa...@logilab.fr (supplier of updated aster 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)


-BEGIN PGP SIGNED MESSAGE-
Hash: SHA1

Format: 1.8
Date: Wed, 26 Mar 2014 16:03:58 +0100
Source: aster
Binary: code-aster code-aster-mpi-engine code-aster-test
Architecture: source amd64 all
Version: 11.5.0+dfsg2-1
Distribution: sid
Urgency: low
Maintainer: Debian Science Team 
debian-science-maintainers@lists.alioth.debian.org
Changed-By: Denis Laxalde denis.laxa...@logilab.fr
Description: 
 code-aster - Code_Aster finite element program - metapackage
 code-aster-mpi-engine - Code_Aster finite element program - parallel binary
 code-aster-test - Code_Aster finite element program - test files and examples
Closes: 670842 703415 707940 713083 731211 740091
Changes: 
 aster (11.5.0+dfsg2-1) unstable; urgency=low
 .
   * New upstream release (Closes: #731211):
 - drop all previous patches that don't apply anymore;
 - add new ones to fix the build system configuration;
 - (most) test cases run fine (Closes: #670842);
 .
   * debian/control:
 - set myself as uploader;
 - adjust build dependencies:
   + code-aster-{run,gui} not needed,
   + use petsc-dev instead of libpetsc3.2-dev (Closes: #740091)
 .
   * debian/rules:
 - rewrite from scratch in order to account for the change of build system,
 upstream (waf is used now);
 - use dh_python2 instead of python-support;
 - only build the MPI version;
 .
   * Adjust .install files (Closes: #713083)
   * Drop .postrm/.postinst files (Closes: #703415, #707940)
 .
   * Unpack Waf binary, hence the +dfsg.
Checksums-Sha1: 
 4d892337a27f7a29d9312fa1a253cb3c235d9563 2505 aster_11.5.0+dfsg2-1.dsc
 615b80d3c6956093eb44c3f931110e2336e66210 76593241 
aster_11.5.0+dfsg2.orig.tar.gz
 02bd9440c90c94dfb7420a5327927a2fffa80e6b 9600 
aster_11.5.0+dfsg2-1.debian.tar.xz
 0b695eee838682a2ecb3adc77107bc4a2d25aa5d 1638620 
code-aster_11.5.0+dfsg2-1_amd64.deb
 52fad6a8fa2437eee500bb83ced8676880f771b0 6713688 
code-aster-mpi-engine_11.5.0+dfsg2-1_amd64.deb
 5e805b374b74cb5efe17f419478fb61979373f4d 26805108 
code-aster-test_11.5.0+dfsg2-1_all.deb
Checksums-Sha256: 
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aster_11.5.0+dfsg2-1.dsc
 d8b2e69a889b2bc3364c7eb65cc5d7a752f221125e5ea0b4c9fb06083adfe969 76593241 
aster_11.5.0+dfsg2.orig.tar.gz
 d6d15bd047d6b2328c528c475d9aec2c454fc86b4e4784f82ee1ca984a4e9ffe 9600 
aster_11.5.0+dfsg2-1.debian.tar.xz
 7d2952d91269261673dece991c94d981cf09b6d3b085d10d14fd8eed08cb0e00 1638620 
code-aster_11.5.0+dfsg2-1_amd64.deb
 c048704e2cbf3d6a2395968444b97056b74c93f9a21e8b03ab810eab36779112 6713688 
code-aster-mpi-engine_11.5.0+dfsg2-1_amd64.deb
 

Bug#707940: marked as done (code-aster-engine: fails to install, purge, and install again: ln: failed to create symbolic link '/usr/lib/codeaster/STABLE/config.txt': No such file or directory)

2014-03-26 Thread Debian Bug Tracking System
Your message dated Wed, 26 Mar 2014 15:49:03 +
with message-id e1wsq4d-ww...@franck.debian.org
and subject line Bug#707940: fixed in aster 11.5.0+dfsg2-1
has caused the Debian Bug report #707940,
regarding code-aster-engine: fails to install, purge, and install again: ln: 
failed to create symbolic link '/usr/lib/codeaster/STABLE/config.txt': No such 
file or directory
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.)


-- 
707940: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=707940
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
---BeginMessage---
Package: code-aster-engine
Version: 11.3.0-2-2
Severity: serious
User: debian...@lists.debian.org
Usertags: piuparts

Hi,

during a test with piuparts I noticed your package failed to install,
remove+purge, and install again.

Like a plain failure on initial install this makes the package too buggy
for a release, thus the severity.

This is often a problem with the home directory of a system user:
the user is not deleted during purge (which is fine), but the home
directory is removed. Since the user already exists on the next
installation, adduser won't recreate the home.

From the attached log (scroll to the bottom...):

  Selecting previously unselected package code-aster-engine.
  (Reading database ... 7875 files and directories currently installed.)
  Unpacking code-aster-engine (from 
.../code-aster-engine_11.3.0-2-2+b1_amd64.deb) ...
  Setting up code-aster-engine (11.3.0-2-2+b1) ...
  + CODEASTER_VERSION=STA11.3
  + pyversions -d
  + perl -pi -e s|python||g
  + dc_pyvers=2.7
  + ln -sf /usr/lib/codeaster/STABLE/config-py2.7.txt 
/usr/lib/codeaster/STABLE/config.txt
  ln: failed to create symbolic link '/usr/lib/codeaster/STABLE/config.txt': No 
such file or directory
  dpkg: error processing code-aster-engine (--configure):
   subprocess installed post-installation script returned error exit status 1
  Errors were encountered while processing:
   code-aster-engine


cheers,

Andreas


code-aster-engine_11.3.0-2-2+b1.log.gz
Description: GNU Zip compressed data
---End Message---
---BeginMessage---
Source: aster
Source-Version: 11.5.0+dfsg2-1

We believe that the bug you reported is fixed in the latest version of
aster, 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 707...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Denis Laxalde denis.laxa...@logilab.fr (supplier of updated aster 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)


-BEGIN PGP SIGNED MESSAGE-
Hash: SHA1

Format: 1.8
Date: Wed, 26 Mar 2014 16:03:58 +0100
Source: aster
Binary: code-aster code-aster-mpi-engine code-aster-test
Architecture: source amd64 all
Version: 11.5.0+dfsg2-1
Distribution: sid
Urgency: low
Maintainer: Debian Science Team 
debian-science-maintainers@lists.alioth.debian.org
Changed-By: Denis Laxalde denis.laxa...@logilab.fr
Description: 
 code-aster - Code_Aster finite element program - metapackage
 code-aster-mpi-engine - Code_Aster finite element program - parallel binary
 code-aster-test - Code_Aster finite element program - test files and examples
Closes: 670842 703415 707940 713083 731211 740091
Changes: 
 aster (11.5.0+dfsg2-1) unstable; urgency=low
 .
   * New upstream release (Closes: #731211):
 - drop all previous patches that don't apply anymore;
 - add new ones to fix the build system configuration;
 - (most) test cases run fine (Closes: #670842);
 .
   * debian/control:
 - set myself as uploader;
 - adjust build dependencies:
   + code-aster-{run,gui} not needed,
   + use petsc-dev instead of libpetsc3.2-dev (Closes: #740091)
 .
   * debian/rules:
 - rewrite from scratch in order to account for the change of build system,
 upstream (waf is used now);
 - use dh_python2 instead of python-support;
 - only build the MPI version;
 .
   * Adjust .install files (Closes: #713083)
   * Drop .postrm/.postinst files (Closes: #703415, #707940)
 .
   * Unpack Waf binary, hence the +dfsg.
Checksums-Sha1: 
 4d892337a27f7a29d9312fa1a253cb3c235d9563 2505 aster_11.5.0+dfsg2-1.dsc
 615b80d3c6956093eb44c3f931110e2336e66210 76593241 
aster_11.5.0+dfsg2.orig.tar.gz
 

glpk_4.53-2_amd64.changes ACCEPTED into unstable

2014-03-26 Thread Debian FTP Masters


Accepted:

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 26 Mar 2014 14:27:17 +0100
Source: glpk
Binary: libglpk36 libglpk36-dbg libglpk-dev glpk-doc glpk-utils
Architecture: source all amd64
Version: 4.53-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Team 
debian-science-maintainers@lists.alioth.debian.org
Changed-By: Sébastien Villemot sebast...@debian.org
Description: 
 glpk-doc   - linear programming kit - documentation files
 glpk-utils - linear programming kit - utility files
 libglpk-dev - linear programming kit - development files
 libglpk36  - linear programming kit with integer (MIP) support
 libglpk36-dbg - linear programming kit - debugging symbols
Closes: 740067
Changes: 
 glpk (4.53-2) unstable; urgency=medium
 .
   [ Maximiliano Curia ]
   * New patch: obtain-iodbc-cflags.patch (Closes: #740067)
Checksums-Sha1: 
 4874e99eeaadd508f81cdcb64729221450602ce9 2255 glpk_4.53-2.dsc
 4e5db4a76e5057c129591c21770bc11d3afdaece 13980 glpk_4.53-2.debian.tar.xz
 6d45f1996951c21f176118c289509e34d47c387e 1027838 glpk-doc_4.53-2_all.deb
 8a4927230cc6662859578483b336a8741d96fd87 410196 libglpk36_4.53-2_amd64.deb
 1d8a26f99bc43b56716dc6bd0db37cf795c58287 829090 libglpk36-dbg_4.53-2_amd64.deb
 893d57700dc14c9f4582e5953775bf4aef43b39a 456426 libglpk-dev_4.53-2_amd64.deb
 af3112a6ff6ed471c33ac5f73a0ec9d05c050353 153758 glpk-utils_4.53-2_amd64.deb
Checksums-Sha256: 
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glpk_4.53-2.dsc
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glpk-doc_4.53-2_all.deb
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libglpk36_4.53-2_amd64.deb
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libglpk36-dbg_4.53-2_amd64.deb
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libglpk-dev_4.53-2_amd64.deb
 5230fdb6536b1d1f7ce01f0d90ec821e4783ea1f68c49932c195e096ba44c1b7 153758 
glpk-utils_4.53-2_amd64.deb
Files: 
 570f6b4f65ffe4cdf71b971b8a54b5d9 2255 math optional glpk_4.53-2.dsc
 53341699ef2d6891ae2ebff01b7739cc 13980 math optional glpk_4.53-2.debian.tar.xz
 dd39001e83aacd2004208172d0123c2a 1027838 doc optional glpk-doc_4.53-2_all.deb
 1ef328db4580054607f86fbde9fea202 410196 math optional 
libglpk36_4.53-2_amd64.deb
 6867aadb442e24855199aff63686c213 829090 debug extra 
libglpk36-dbg_4.53-2_amd64.deb
 6cdfaa19564b38589d64729d6f29a3e8 456426 libdevel optional 
libglpk-dev_4.53-2_amd64.deb
 105be9399dffa67b2648fa1c066efa73 153758 math optional 
glpk-utils_4.53-2_amd64.deb

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Thank you for your contribution to Debian.

-- 
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#740067: marked as done (src:glpk: Changes in build dependency libiodbc2)

2014-03-26 Thread Debian Bug Tracking System
Your message dated Wed, 26 Mar 2014 15:53:26 +
with message-id e1wsq8t-0001tw...@franck.debian.org
and subject line Bug#740067: fixed in glpk 4.53-2
has caused the Debian Bug report #740067,
regarding src:glpk: Changes in build dependency libiodbc2
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.)


-- 
740067: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=740067
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
---BeginMessage---
Source: glpk
Version: 4.53-1
Severity: important
Tags: patch

Hi,

I'm about to upload a new version of libiodbc2 to unstable that includes some
changes that require patching glpk, I'm attaching the proposed patch.

Please let me know if there is any issue related to libiodbc2 I might have
overlooked.

Thanks,
Index: glpk-4.53/configure.ac
===
--- glpk-4.53.orig/configure.ac	2014-02-25 11:32:09.878480621 +0100
+++ glpk-4.53/configure.ac	2014-02-25 11:32:47.316935539 +0100
@@ -117,6 +117,7 @@
   AC_MSG_ERROR([--enable-odbc requires --enable-dl])
fi
AC_MSG_RESULT([yes])
+   CPPFLAGS=$(iodbc-config --cflags) $CPPFLAGS
AC_DEFINE_UNQUOTED([ODBC_DLNAME], [$LIBIODBC], [N/A])
 elif test $enable_odbc = unix; then
if test $enable_dl = no; then
---End Message---
---BeginMessage---
Source: glpk
Source-Version: 4.53-2

We believe that the bug you reported is fixed in the latest version of
glpk, 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 740...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Sébastien Villemot sebast...@debian.org (supplier of updated glpk 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)


-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 26 Mar 2014 14:27:17 +0100
Source: glpk
Binary: libglpk36 libglpk36-dbg libglpk-dev glpk-doc glpk-utils
Architecture: source all amd64
Version: 4.53-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Team 
debian-science-maintainers@lists.alioth.debian.org
Changed-By: Sébastien Villemot sebast...@debian.org
Description: 
 glpk-doc   - linear programming kit - documentation files
 glpk-utils - linear programming kit - utility files
 libglpk-dev - linear programming kit - development files
 libglpk36  - linear programming kit with integer (MIP) support
 libglpk36-dbg - linear programming kit - debugging symbols
Closes: 740067
Changes: 
 glpk (4.53-2) unstable; urgency=medium
 .
   [ Maximiliano Curia ]
   * New patch: obtain-iodbc-cflags.patch (Closes: #740067)
Checksums-Sha1: 
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Checksums-Sha256: 
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glpk_4.53-2.debian.tar.xz
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Files: 
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libglpk36_4.53-2_amd64.deb
 6867aadb442e24855199aff63686c213 829090 debug extra 
libglpk36-dbg_4.53-2_amd64.deb
 

Re: Trilinos packages

2014-03-26 Thread Felix Salfelder
On Wed, Mar 26, 2014 at 10:22:23AM +0100, Nico Schlömer wrote:
 I would suggest to first go with a monolithic
 package and split it up at a later point.

yes. the old trilinos debian source package had a libname.patch and a
soname.patch, these fix the names for a monolithic package. i suggest to
import these (or just rebase your work on top of that).

also, theres a note on renaming in README.Debian. and a changelog that
would be nice to have.

README.Debian
[..]
Debian Trilinos libraries renaming
==

Following a discussion with ftpmaster, the Trilinos libraries have
been renamed to be less generic. They all use the same prefix now :
libtrilinos_ . That should also help tremendously with
 - avoiding conflicts with other libraries/packages
 - identifying available trilinos libraries
[..]

 In the course of packaging Trilinos for Debian, I have identified
 quite a number of bugs in Trilinos for which I maintain a little zoo
 of patches, https://github.com/nschloe/trilinos-ubuntu/tree/master/patches.
 Some of those have already made it upstream, and we'll have to see if
 we can get in more of those before the next release freeze.

ideally those patches should be included in your package at alioth
(whether or not they have been accepted upstream). is there a specific
reason to maintain a second and different repository for ubuntu?

regards
felix

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liggghts 3.0.0+repack-1 MIGRATED to testing

2014-03-26 Thread Debian testing watch
FYI: The status of the liggghts source package
in Debian's testing distribution has changed.

  Previous version: 2.3.8-1
  Current version:  3.0.0+repack-1

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Bug#731211: aster: new upstream release, work in progress

2014-03-26 Thread Andrea Palazzi




Il Mercoledì 26 Marzo 2014 10:07, Denis Laxalde de...@laxalde.org ha scritto:

Hi,
Andrea Palazzi a écrit :
 So, the package is good, the only thing that should be changed, if we
 want to upload the package as soon as possible, is that with this
 packaging, code-aster-mpi-engine should depend on code-aster and not
 vice-versa.

I don't understand why we'd want this. With the current binary layout, 
code-aster (the Python library and elements catalog) cannot be used 
without an engine (the aster binary), whereas the engine could (in 
theory) be used without the code-aster Python library or elements 
catalog (although it wouldn't be more useful than a python interpreter).

From the Debian policy: The Depends field should be used if the depended-on 
package is
required for the depending package to provide a significant amount of
functionality.

So I would say that code-aster-engine depends on 
code-aster. On the other hand also code-aster depends on engine, which 
makes it a circular dependency. They are not forbidden and we can live 
with it, however I would like to avoid it if possible.
Note also that as_run (code-aster-run) depends on code-aster because of 
config.txt so we would have another circular dependency... the more I think 
about it the more I feel like we have to find a good solution for this.

 Note however that code-aster-run puts some files under
 /usr/lib/codeaster, so we shoult ideally take also care of
 code-aster-run and code-aster-gui packages.

This symlink is precisely here so that as_run (from code-aster-run 
package) can still be used when aster is installed in /usr/lib/aster 
(not /usr/lib/codeaster). Ultimately, astk's packaging should be updated 
in order not to need this, but I currently I no time to do this.


Ok, let's just keep it as it is then.

 - In the process, I'd like also to switch from svn to git.
Not sure I get your point. It's already done.

I was talking about the astk packages, but if you don't have the time to 
maintain them then let's stay on svn.

 - as_run doesn't work out of the box: it relies on having informations
 about available versions in the file /etc/codeaster/aster ; the script
 update-codeaster-engines takes care of this, it should be run on
 postinst/postrm scripts of the code-aster-*-engine packages.

What does not work? AFAICT, it works: I can run 'as_run xxx.export' or 
some tests like 'as_run --test mtlp100a'.

You're right: it works because the template /etc/codeaster/aster file points to 
STABLE when installed.
However a sysadmin is not supposed to edit the file every time an engine 
package is installed or removed: as I said previously, this is more a status 
file than a config file, so the issue is still valid: we need a way to update 
the /etc/codeaster/aster file when an engine package is installed, be it the 
old postinst scripts or some other mechanism.

 - provide also the serial version

- a simple script to run the test cases would be nice... the .comm file
that was used for this purpose has been removed from upstream, or it's
just me that can't find it?
In the previous packaging there were an as_test script, maybe I can work on 
it...

 - 11.5 is already out
 And I updated the packaging for this version already.
Great :D

 - and I'd like to provide also testing/unstable versions
Again, let's keep it simple first.
Sure, it was just a wish :)

Bye
Andrea


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Re: Alioth /git/debian-science/packages directory

2014-03-26 Thread Anton Gladky
2014-03-26 16:41 GMT+01:00 Leopold Palomo-Avellaneda l...@alaxarxa.net:

 I thought that the packages from robotics blend could go to a folder (for
 instance robotics). So, my question is what do you think if we are moving
 the
 git repo to a folder with the name of the blend, or something that classify
 it?


I do not think, that it is necessary and can improve anything. IMHO.

Cheers

Anton
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[sponsor needed] Updates to urdfdom and urdfdom-headers

2014-03-26 Thread Jose Luis Rivero
Hi all:

I would need a sponsor to upload the updates to our packages: urdfdom
and urdfdom-headers. Both jump to version 0.3.0, and the updates are
already in their respective debian repositories:

http://anonscm.debian.org/gitweb/?p=debian-science/packages/urdfdom.git
http://anonscm.debian.org/gitweb/?p=debian-science/packages/urdfdom-headers.git


Thanks.

-- 
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Bug#741303: libfeel++1: libfeelpp.so.1.0.0 links with both GPL-licensed and GPL-incompatible libraries

2014-03-26 Thread Francesco Poli
On Wed, 26 Mar 2014 15:52:34 +0100 Christophe Prud'homme wrote:

 Dear Francesco Poli

Hello Christophe,
thanks for commenting my bug report.

 
 What is the state of this bug ? any progress with respect to scotch
 licensing ?

I am not aware of any progress: I am the bug report submitter and, as I
said in the original bug report, I need help from other people who
volunteer to get in touch with the upstream developer of SCOTCH and
persuade him to re-license SCOTCH under the LGPL.
I have already tried to do so in the past, but I failed to convince him
that there is an issue.

Please (re-)read https://bugs.debian.org/740463#5 for the full story.

Are you willing to help?

If so, please contact the main author of SCOTCH and explain the
licensing headaches he is causing to several other projects.
If you manage to persuade him (to get the necessary paperwork) to
re-license SCOTCH under the LGPL v2.1 or, at least, to dual-license it
under the GNU LGPL v2.1 or the CeCILL-C v1.0 (at the recipient's
choice), all the GPL-incompatibility issues will instantly vanish! 

 
 this is a really painful situation !

Indeed.

 
 are petsc and all libraries (based on umfpack) related to this bug issues
 marked for removal from testing ?

By looking at http://udd.debian.org/cgi-bin/autoremovals.cgi
it seems to me that feel++ and getdp are marked for auto-removal from
Debian testing, while other packages affected by SCOTCH licensing
issues are not (yet?) on the list.
I am not sure why (maybe because they are not leaf packages?).

The complete list of SCOTCH licensing bug reports is
https://bugs.debian.org/cgi-bin/pkgreport.cgi?archive=both;tag=scotch-license-issues;users=debian-science-maintainers@lists.alioth.debian.org

 
 have you marked also octave with an RC bug ? it  uses suitesparse/umfpack
 and scotch [1]

Could you please elaborate?
I cannot spot the dependency of octave on scotch...

 Basically all libraries/programs using suitesparse/umfpack should have this
 bug, no ?

Only when they contain a file which (directly or indirectly) links with
both SCOTCH and some GPL-licensed library (such as UMFPACK)...

 I think Libreoffice/Openoffice  are using suitesparse(and scotch) and glpk
 so it should also have the RC bug.

libreoffice? glpk?
Could you please help me to find the dependency on scotch? I fail to
see it...

 
 I guess that the technical solution would be to get rid of umfpack but then
 that would disrupt a lot of software !

I think I clearly illustrated the solutions that I consider as
acceptable: see my original bug report(s).
Solution (A) is the most desirable, that's why I called for help to
push in that direction...

I hope this clarifies.



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 GnuPG key fpr == CA01 1147 9CD2 EFDF FB82  3925 3E1C 27E1 1F69 BFFE


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Bug#742752: linking patches for the scilab build system

2014-03-26 Thread Matthias Klose

Package: scilab
Version: 5.5.0~beta-1~git~20140324-1354-1
Severity: important
Tags: patch

Hi,

here are a few patches for the scilab build system, where from my point of view, 
upstream doesn't understand autotools.


 - the scilab-bin and scilab-cli-bin binaries reference symbols
   in the .o files, which are not explicitly linked. Recent binutils
   default to --no-copy-dt-needed-entries, so I'm not sure why the
   build doesn't fail. fix-binary-linking.diff tries to fix that,
   suggestions which library to fix in which case by Sylvestre Ledru.

 - fix-lib-linking.diff fixes the understanding of LDFLAGS and
   LIBADD.  I think these are all cases, but maybe I do miss some.

 - add-lib-dependencies.diff fixes some underlinking. this is seen
   in load errors when trying to build the docs.
   There is a patch commented out for modules/graphic_export
   which seems to be needed, but apparently the build system
   has some dependency cycles, so this won't work.

 - disable-no-as-needed.diff makes no difference for Debian builds.
   However, with or without it, it still fails on Ubuntu 14.04.

I think I did fix the worst misconceptions, but the upstream build system still 
looks like some kind of mess.  I won't have time to further dive into that.


The patches still allow the build on Debian unstable, but still ftbfs on Ubuntu 
trusty.  The only difference for Ubuntu should be the --as-needed default and 
the hardening defaults, but despite adding the extra flags to disable these 
defaults, the build still fails.


The Debian portion of the patch calls autoreconf.

Looks like you should disable the modelica bits on architectures which have 
ocaml but don't have ocamlopt.


patches at:
http://launchpadlibrarian.net/170791978/scilab_5.5.0%7Ebeta-1%2Bgit%7E20140324-1354-1ubuntu1_5.5.0%7Ebeta-1%2Bgit%7E20140324-1354-1ubuntu2.diff.gz

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A votre aimable attention

2014-03-26 Thread Jeanne MORAU

Bonsoir,

Excusez-moi, du fait que mon mail puisse vous choquer. Cela fait quelques
jours, que j'ai envoyé ce mail à une association qui s'occupe des enfants
démunis. Depuis lors, je n'ai toujours pas eu de réponse de cette
association qui se prétend être pour les enfants démunis et pourtant ce
n'était pas vraiment le cas. Mais, j'ai pu obtenir votre profil grâce à
un logiciel appelé contact Express v2013 France. Un moteur de recherche
de profil privilégié sur internet et si vous recevez ma lettre ce jour,
je vous prie de me répondre.

Je vous fais savoir avec confiance que je dispose de 180.000 Euros dans une
banque dans le pays ou j'étais en fonction en qualité d'ingénieure
énergéticien.

Mon souhait est d'en faire un don car je n'ai pas d’héritiers, ni
parents à qui léguer mon argent, vue que mes jours sont en danger à
cause de mon état de santé critique. Je dois subir une intervention
chirurgicale les jours à venir dans un hôpital spécialisé. Je ne sais
pas ce que l'être suprême me réserve, les résultats de certaines de mes
analyses médicales font état de ce que mes jours sur terre sont
comptés.

Mon désire est que vous prenez contact au plutôt avec mon avocat pour
qu'il vous aide à rentré en possession de ces fonds, car il est déjà
informé de mes intentions envers vous.

Maître Francis DAKO 
email: etude_mefrancisd...@yahoo.fr



Très sincèrement.

Jeanne MORAU

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συναγερμού ενημέρωση

2014-03-26 Thread Antônio Paulo Vieira
γραμματοκιβώτιό σας έχει υπερβεί, το όριο αποθήκευσης είναι 
1 GB, η οποία ορίζεται από το διαχειριστή, είναι 
τρέχει σε 99,8 gigabytes, δεν μπορείτε να στείλετε ή να 
λάβετε νέα μηνύματα, μέχρι να ξανά-validate 
γραμματοκιβώτιό σας. 

να ανανεώσει το γραμματοκιβώτιο, κάντε κλικ στο παρακάτω σύνδεσμο: 

http://webphysicsuocgr.yolasite.com/ 

Σας ευχαριστώ! 
διαχειριστής του συστήματος webmail
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