armci-mpi is marked for autoremoval from testing

[Debian testing autoremoval watch]

armci-mpi 0.0~git20160222-1 is marked for autoremoval from testing on 2017-03-20

It is affected by these RC bugs:
816305: armci-mpi: FTBFS: tests hang or explicitly fail


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Bug#856705: [dko...@debian.org: Bug#856705: graywolf: License violation]

[Tim Edwards]

Hello Dima,


Hi. Yeah, there're plenty of other (and better) SVD implementations.
They won't be a drop-in replacement, however because numerical recipes
uses a ridiculous matrix storage scheme:

 typedef struct {
 INTrows ;
 INTcolumns ;
 DOUBLE **m ;
 } YMBOX, *YMPTR ;

I.e. each row (or column) of a matrix is stored in a separate chunk of
(usually dynamically-allocated) memory. This is stupid, and no other
library would do it this way. So to use other implementations you might
need to write a shim to convert formats. If you find a better way,
please let me know.


I don't think it's that bad.  In graywolf, the matrix computations
appear to be restricted to exactly one routine (adapt_wire_estimator),
which is about 200 lines of code that create some matrices, fill them,
call a few standard matrix routines (multiply, add, etc.), then call
svd_solve.  It all appears to be self-contained, so as long as I can
do the same matrix functions with another library, it should be simple
to replace the Numerical Recipes code.  In other words, matrices aren't
used anywhere else in graywolf.  The matrices are created for the sole
purpose of running svd_solve, and then freed.

---Tim

++-+
| R. Timothy Edwards (Tim)   | email: t...@opencircuitdesign.com|
| Open Circuit Design| web:   http://opencircuitdesign.com |
| 19412 Cissel Manor Drive   | phone: (301) 528-5030   |
| Poolesville, MD 20837  | cell:  (408) 828-8212   |
++-+

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Bug#856705: [dko...@debian.org: Bug#856705: graywolf: License violation]

[Dima Kogan]

Tim Edwards  writes:

> Well, it's pretty clear that the TimberWolf authors at Yale unabashedly
> plaigerized out of Numerical Recipes for their thesis work.  What you
> found is not particularly difficult to work around, as the single-value
> decomposition routines can be found in the GNU Scientific Library and
> should be reasonably easy to substitute.

Hi. Yeah, there're plenty of other (and better) SVD implementations.
They won't be a drop-in replacement, however because numerical recipes
uses a ridiculous matrix storage scheme:

typedef struct {
INTrows ;
INTcolumns ;
DOUBLE **m ;
} YMBOX, *YMPTR ;

I.e. each row (or column) of a matrix is stored in a separate chunk of
(usually dynamically-allocated) memory. This is stupid, and no other
library would do it this way. So to use other implementations you might
need to write a shim to convert formats. If you find a better way,
please let me know.


>  However, it feeds back into other matrix manipulation routines, so I
> cannot be sure how much of that was pulled from Numerical Recipies.
> This looks like finding a needle in a haystack to me. How did you find
> that bit of plaigerized code, and how would I go about flushing out
> any additional plaigerized sections of code?

I came across some other libraries that were doing a similar thing, and
then searched the Debian codebase (http://codesearch.debian.net) for
some unique-looking comments. Here I searched for

You must augment A with extra zero rows

I also searched for some other things that caught some other libraries,
but the above chunk of text is the only one I found in graywolf. What
you can do is to look at functions that use that YMPTR matrix
representation: anything that uses it is a candidate for being plucked
from the book.

Note that for some reason the utility code to support this matrix
representation IS in the public domain, as indicated in numerical
recipes copyright page linked in the bug report.


> I definitely want these out of the code base, especially as GNU
> alternatives are readily available.

Thank you very much.

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Processed: Tag 855929 patch

[Debian Bug Tracking System]

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

> tags 855929 + patch
Bug #855929 [src:mclibs] mclibs: FTBFS: LOCB/LOCF: address 0x7f68e28cd740 
exceeds the 32 bit address space or is not in the data segments
Added tag(s) patch.
> thanks
Stopping processing here.

Please contact me if you need assistance.
-- 
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Contact ow...@bugs.debian.org with problems

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Bug#855929: mclibs: FTBFS: Test failures

[Gilles Filippini]

Control; tags -1 + patch

On Thu, 23 Feb 2017 14:27:50 +0100 Lucas Nussbaum  wrote:
> Source: mclibs
> Version: 20061220+dfsg3-3
> Severity: serious
> Tags: stretch sid
> User: debian...@lists.debian.org
> Usertags: qa-ftbfs-20170221 qa-ftbfs
> Justification: FTBFS in stretch on amd64
> 
> Hi,
> 
> During a rebuild of all packages in stretch (in a stretch chroot, not a
> sid chroot), your package failed to build on amd64.
> 
> Relevant part (hopefully):
> > -L/<>/mclibs-20061220+dfsg3/lib -Wl,-static -leurodec -lpacklib 
> > -lkernlib -Wl,-dy -lm -lnsl -lcrypt -ldl -lgfortran
> > gfortran -g -o eudtest -O3 -D_FORTIFY_SOURCE=2 -fno-range-check 
> > -fno-automatic -fno-second-underscore -fstack-protector 
> > --param=ssp-buffer-size=4 -fno-automatic -Wl,-z,relro   
> > -L/<>/mclibs-20061220+dfsg3/src/lib  main.o steerd.o steerf.o 
> > testd.o testf.o   `cernlib eurodec packlib`  \
> >  || rm -f eudtest
> > rm -f eurodec.dat
> > ln -s /<>/mclibs-20061220+dfsg3/build/mclibs/eurodec/eurodec.dat 
> > eurodec.dat
> > cp 
> > /<>/mclibs-20061220+dfsg3/src/mclibs/eurodec/eudtest/eutitle.data 
> > eutitle.dat
> > Testing eurodec
> >   ... using eudtest
> > 
> > LOCB/LOCF: address 0x7f68e28cd740 exceeds the 32 bit address space
> > or is not in the data segments
> > This may result in program crash or incorrect results
> > Therefore we will stop here
> > 
> > Test result = 231
> > Makefile:482: recipe for target 'test' failed
> 
> The full build log is available from:
>http://aws-logs.debian.net/2017/02/21/mclibs_20061220+dfsg3-3_testing.log
> 
> A list of current common problems and possible solutions is available at
> http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!
> 
> About the archive rebuild: The rebuild was done on EC2 VM instances from
> Amazon Web Services, using a clean, minimal and up-to-date chroot. Every
> failed build was retried once to eliminate random failures.

Patch proposal attached, tested on amd64 and i386 sbuild.

Thanks,

_g.
diff -Nru mclibs-20061220+dfsg3/debian/changelog 
mclibs-20061220+dfsg3/debian/changelog
--- mclibs-20061220+dfsg3/debian/changelog  2013-08-23 19:13:53.0 
+0200
+++ mclibs-20061220+dfsg3/debian/changelog  2017-03-05 22:14:26.0 
+0100
@@ -1,3 +1,11 @@
+mclibs (20061220+dfsg3-3.1) unstable; urgency=medium
+
+  * Non-maintainer upload
+  * patch 213-fix-test-suite-build.dpatch modified to build eudtest
+with -no-pie (closes: #855929)
+
+ -- Gilles Filippini   Sun, 05 Mar 2017 22:14:26 +0100
+
 mclibs (20061220+dfsg3-3) unstable; urgency=low
 
   * debian/control:
diff -Nru mclibs-20061220+dfsg3/debian/patches/213-fix-test-suite-build.dpatch 
mclibs-20061220+dfsg3/debian/patches/213-fix-test-suite-build.dpatch
--- mclibs-20061220+dfsg3/debian/patches/213-fix-test-suite-build.dpatch
2013-08-23 19:13:53.0 +0200
+++ mclibs-20061220+dfsg3/debian/patches/213-fix-test-suite-build.dpatch
2017-03-05 22:13:53.0 +0100
@@ -20,9 +20,11 @@
 diff -urNad mclibs-2006.dfsg.2~/src/mclibs/eurodec/eudtest/Imakefile 
mclibs-2006.dfsg.2/src/mclibs/eurodec/eudtest/Imakefile
 --- mclibs-2006.dfsg.2~/src/mclibs/eurodec/eudtest/Imakefile   1997-03-14 
17:32:14.0 +
 +++ mclibs-2006.dfsg.2/src/mclibs/eurodec/eudtest/Imakefile2008-01-04 
18:57:55.0 +
-@@ -4,11 +4,10 @@
- 
+@@ -3,12 +3,12 @@
+ DefinePackageLibrary(NullParameter)
+  
  FORTRANSAVEOPTION = FortranSaveFlags
++FORTRANOPTIONS += -no-pie
  
 
-CernlibFortranProgramTarget(eudtest,$(OBJS),$(PACKAGE_LIB),$(PACKAGE_LIB),packlib)
 
+CernlibFortranProgramTarget(eudtest,$(OBJS),NullParameter,NullParameter,eurodec
 packlib)


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Velika turneja dr. Semira Osmanagića po Hrvatskoj, Bugarskoj, Srbiji, Makedoniji i Sloveniji

[Piramida Sunca]

Bosanske piramide NEWSLETTER 

















 


VELIKA TURNEJA DR. SEMIRA OSMANAGIĆA PO HRVATSKOJ, BUGARSKOJ, SRBIJI, MAKEDONIJI I SLOVENIJI

Nasumnjivo jedan od najaktivnijih istraživača drevnih civilizacija i najkontroverzniji stručnjak za piramide u svijetu dr. Semir Osmanagić krece na veliku balkansku turneju u 2017. U fokusu njegovih predavanja bit će rezultati istraživanja bosanskih piramida koji nedvosmisleno dokazuju da su najstarije piramide građene kao energetske mašine koje emitiraju superbrze Tesline skalarne valove u svemir, a energija piramida se može upotrebljavati u ljekovite svrhe, unaprijeđenje molekularne strukture vode i hrane, te razvoj aure i duhovnih
čula.

Osim atraktivnih destinacija Bosanske piramide Sunca i Mjeseca te prahistorijskog Podzemnog labirinta Ravne, dr. Osmanagić će promovirati volontersku radnu akciju (www.piramidasunca.ba) i posjet novootvorenom energetskom parku “Ravne 2” u Visokom.

Koncem marta Osmanagić započinje turneju u Hrvatskoj, a zatim slijedi niz drugih gradova u regiji:


22.03. Solin (Hrvatska), “Teatrin”, 19-21
24.03. Supetar (Hrvatska), “Knjižnica”, 18-20
25.03. Umag (Hrvatska), “Dom Atilio Gomboc”, 16-19
26.03. Rijeka (Hrvatska), Hotel “Jadran”, 16-19
27.03. Šibenik, “Gradska Knjižnica”, 19-21
28.03. Knin (Hrvatska), “Gradska Knjižnica”, 18-20
01.04. Varna (Bugarska)
02.04. Burgas (Bugarska)
03.04. Stara Zagora
(Bugarska)
04.04. Plovdiv (Bugarska)
05.04. Sofija (Bugarska)
07.04. Vrbas (Srbija), Kulturni centar – bioskop “Jugoslavija”, 15-17
07.04. Subotica (Srbija), “Otvoreni Univerzitet”, 20-22
08.04. Vršac (Srbija), Kulturni centar “Vršac”, 15-17
08.04. Beograd (Srbija), Centar “Balašević”, 20-22
09.04. Rtanj (Srbija), hotel “Rtanj”, 20-22
10.04. Skopje (Makedonija), “Mladinski kulturni centar”, 19-21
11.04. Ohrid (Makedonija), 16-18
11.04. Bitolj (Makedonija), hotel “Epinao”, 20-22
27.05. Škofja Loka (Slovenija), gradska Knjižnica “Kašća”, 19-21
29.05. Domžale (Slovenija), “Gradska Knjižnica”, 19-21
06.10. Ljubljana (Slovenija), “Cankarjev Dom”, 19-22







 









 










Službena stranica Fondacije: www.piramidasunca.ba Službena stranica osnivača Fondacije: www.semirosmanagic.com

Tuneli i piramide su otvoreni za posjete svaki dan od 8 sati do zalaska sunca. Informacije za organizirane grupe: incom...@piramidasunca.ba. Na lokaciji “Ravne 2” nije dozvoljeno konzumiranje alkohola.

Fondacija se bavi naučno-arheološkim istraživanjima i ne daje nikakve zdravstvene garancije.

 















Odjavite se ovdje, ako ne želite da primate ove informacije u budućnosti. 

 



























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Bug#856871: singular-doc: broken symlink: /usr/share/info/singular.info.gz -> singular.hlp.gz

[Jerome BENOIT]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA512

Hello Andreas, thanks for your  report.

On Sun, 05 Mar 2017 18:56:00 +0100 Andreas Beckmann  wrote:
> Package: singular-doc
> Version: 1:4.0.3-p3+ds-5
> Severity: normal
> User: debian...@lists.debian.org
> Usertags: piuparts
> 
> Hi,
> 
> during a test with piuparts I noticed your package ships (or creates)
> a broken symlink.
> 
> >From the attached log (scroll to the bottom...):
> 
> 0m24.6s ERROR: FAIL: Broken symlinks:
>   /usr/share/info/singular.info.gz -> singular.hlp.gz
> 
> 
> A file called singular.hlp.gz does not seem to exist in any
> package in the Debian archive.

singular.info was distributed as compressed before the venue of Singular:
I forget this link story. I will fix it in my next packaging.

Thanks,
Jerome

> 
> 
> cheers,
> 
> Andreas

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Bug#856871: singular-doc: broken symlink: /usr/share/info/singular.info.gz -> singular.hlp.gz

[Andreas Beckmann]

Package: singular-doc
Version: 1:4.0.3-p3+ds-5
Severity: normal
User: debian...@lists.debian.org
Usertags: piuparts

Hi,

during a test with piuparts I noticed your package ships (or creates)
a broken symlink.

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

0m24.6s ERROR: FAIL: Broken symlinks:
  /usr/share/info/singular.info.gz -> singular.hlp.gz


A file called singular.hlp.gz does not seem to exist in any
package in the Debian archive.


cheers,

Andreas


singular-doc_1:4.0.3-p3+ds-5.log.gz
Description: application/gzip
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Bug#856870: arduino-mk: Wrong directory (/usr/etc) used for avrdude config

[Tobias Diedrich]

Package: arduino-mk
Version: 1.5.2-1
Severity: normal

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA1

Dear Maintainer,

https://anonscm.debian.org/cgit/debian-science/packages/arduino-mk.git/commit/?h=upstream=b368558d19605c9dc088e1a5f32de6c2fd5755b2
introduced a regression where now "make ispload" tries to run "avrdude [...] -C 
/usr/etc/avrdude.conf".

This is apparently caused by "Fix: Ensure AVRDUDE_CONF is set when 
AVR_TOOLS_DIR is, not just on Windows (Issue #381) 
(https://github.com/sej7278)".
Previously "-C path_to_config" was not added by default.
Now it uses ${AVR_TOOLS_DIR}/etc/avrdude.conf or 
${AVR_TOOLS_DIR}/../avrdude.conf (depending on $(ARDUINO_VERSION)).
Furthermore, "dpkg -S avrdude.conf" shows:

$ dpkg -S avrdude.conf
avrdude: /etc/avrdude.conf
arduino-core: /usr/share/arduino/hardware/tools/avrdude.conf

$ ls -l /usr/share/arduino/hardware/tools/avrdude*
lrwxrwxrwx 1 root root 23 Apr  7  2014 
/usr/share/arduino/hardware/tools/avrdude -> ../../../../bin/avrdude
lrwxrwxrwx 1 root root 17 Apr  7  2014 
/usr/share/arduino/hardware/tools/avrdude.conf -> /etc/avrdude.conf

And AVR_TOOLS_DIR is detected as /usr rather than 
/usr/share/arduino/hardware/tools.
Also even if it was using /usr/share/arduino/hardware/tools, both 
${AVR_TOOLS_DIR}/etc/avrdude.conf and ${AVR_TOOLS_DIR}/../avrdude.conf would 
not find the config AFAICS.

ii  arduino-core 2:1.5.6.2+sdfsg2-3all Code, examples, 
and libraries for the Arduino platform

- -- System Information:
Debian Release: 9.0
  APT prefers testing
  APT policy: (990, 'testing')
Architecture: amd64 (x86_64)
Foreign Architectures: i386

Kernel: Linux 4.8.5 (SMP w/4 CPU cores)
Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: sysvinit (via /sbin/init)

Versions of packages arduino-mk depends on:
ii  arduino-core   2:1.5.6.2+sdfsg2-3
ii  make   4.1-9.1
ii  python 2.7.13-2
ii  python-serial  3.2.1-1

Versions of packages arduino-mk recommends:
ii  screen  4.5.0-3

arduino-mk suggests no packages.

- -- no debconf information

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-END PGP SIGNATURE-

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Bug#856866: sagemath-common: broken symlink: /usr/lib/python2.7/dist-packages/sage/misc/docs/common/themes/sage/static/thebe.js -> ../../../../../../local/share/thebe/thebe.js

[Andreas Beckmann]

Package: sagemath-common
Version: 7.4-9
Severity: normal
User: debian...@lists.debian.org
Usertags: piuparts

Hi,

during a test with piuparts I noticed your package ships (or creates)
a broken symlink.

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

0m35.3s ERROR: FAIL: Broken symlinks:
  
/usr/lib/python2.7/dist-packages/sage/misc/docs/common/themes/sageref/static/thebe.js
 -> ../../sage/static/thebe.js
  
/usr/lib/python2.7/dist-packages/sage/misc/docs/common/themes/sage/static/thebe.js
 -> ../../../../../../local/share/thebe/thebe.js

A file called thebe.js does not appear to be in any package in the Debian 
archive ...


cheers,

Andreas


sagemath-common_7.4-9.log.gz
Description: application/gzip
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opencv 2.4.9.1+dfsg1-1 MIGRATED to testing

[Debian testing watch]

FYI: The status of the opencv source package
in Debian's testing distribution has changed.

  Previous version: 2.4.9.1+dfsg-2.2
  Current version:  2.4.9.1+dfsg1-1

-- 
This email is automatically generated once a day.  As the installation of
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later changes on the next day.
See https://release.debian.org/testing-watch/ for more information.

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Bug#856855: med-fichier: homepage no longer correct

[Ivo De Decker]

package: med-fichier

Hi,

The homepage for med-fichier doesn't exist anymore.

Cheers,

Ivo

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Bug#816305: armci-mpi: FTBFS: tests hang or explicitly fail

[Adrian Bunk]

Control: severity -1 serious

On Mon, Feb 29, 2016 at 01:12:36PM -0500, Aaron M. Ucko wrote:
> Source: armci-mpi
> Version: 0.0~git20160222-1
> Severity: important
> Justification: fails to build from source
> 
> Hi, Michael.
> 
> armci-mpi's test suite has failed on some architectures, as detailed at
> https://buildd.debian.org/status/logs.php?pkg=armci-mpi=0.0~git20160222-1
> 
> So far:
> - On i386, armci-perf apparently hung (still running after 2.5 h.)
> - On kfreebsd-i386, strided-bench likewise apparently hung.
> - On mipsel, ping-pong likewise apparently hung.
> - On powerpc, test_mpi_dim apparently hung, and almost all preceding
>   tests failed.  (Only test_groups and test_group_split succeeded.)
> 
> Could you please take a look?
> 
> Thanks!

On armhf the the 0.0~git20160222-1 upload built, but now a binNMU
FTBFS with a testsuite hang:

https://buildd.debian.org/status/logs.php?pkg=armci-mpi=armhf

...
make[4]: Entering directory '/«PKGBUILDDIR»'
PASS: benchmarks/ping-pong
PASS: benchmarks/ring-flood
PASS: benchmarks/contiguous-bench
E: Caught signal ‘Terminated’: terminating immediately
make[4]: *** Deleting file 'benchmarks/strided-bench.log'
Makefile:1931: recipe for target 'check-TESTS' failed
make[3]: *** [check-TESTS] Terminated


Raising severity to RC since a rebuilt of software in stable is expected 
to succeed.


cu
Adrian

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Processed: Re: Bug#816305: armci-mpi: FTBFS: tests hang or explicitly fail

[Debian Bug Tracking System]

Processing control commands:

> severity -1 serious
Bug #816305 [src:armci-mpi] armci-mpi: FTBFS: tests hang or explicitly fail
Severity set to 'serious' from 'important'

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