Processed: 855130 notfound in release 3.0.6-11

[Debian Bug Tracking System]

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

> notfound 855130 3.0.6-11
Bug #855130 [src:med-fichier] med-fichier: MED library is not compatible with 
HDF5 1.10
The source 'med-fichier' and version '3.0.6-11' do not appear to match any 
binary packages
No longer marked as found in versions med-fichier/3.0.6-11.
> thanks
Stopping processing here.

Please contact me if you need assistance.
-- 
855130: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=855130
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems

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Hi dear, It is my pleasure to write you this mail, please I am sorry we do not know each other but my name is Mis Ediva Davis, I am 19 years old the only daughter to my late parents. I am writing to y

[Ediva Davis]

Can you really help me to be my guardian for the management of my fund. From 
Miss. Ediva Davis.
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Propisi Crne Gore na jednom mjestu [Paragraf Lex MNE d.o.o.]

[Paragraf]

Title: Paragraf Lex MNE - Newsletter


  
  

  

  Osigurajte se da Vam newsletter uvijek stigne u inbox - dodajte našu adresu u adresar svog e-mail programa  

  
  


  


  

  

  

  

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  NAJSADRŽAJNIJA I NAJAŽURNIJA
  PRAVNA BAZA U CRNOJ GORI!   

  
  


  
  

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  je elektronska pravna baza koja sadrži sve što je neophodno za zakonito poslovanje, kako u pravnoj i finansijskoj sferi, tako i u drugim sferama rada i poslovanja. 

  
  

   

  
  

  

  
  
  



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  - Izvorni i prečišćeni tekstovi propisa
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  - Modeli

Sage math cloud ?

[J.W. Foster]

Is there any possibility of the Sage Math Cloud application becoming available 
as open source for Debian or any other Linux?  If you are aware of such. Or a 
similar web based system  for advanced mathematics as open source. I may not be 
subscribed to this exact list, as  I just rejoined Debian Users after several 
years away.Thanks!John Foster
jfoster81...@yahoo.com-- 
debian-science-maintainers mailing list
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Bug#855102: marked as done (theano: SamplingDot broken on negative-stride arrays)

[Debian Bug Tracking System]

Your message dated Tue, 14 Feb 2017 23:34:06 +
with message-id 
and subject line Bug#855102: fixed in theano 0.8.2-6~exp1
has caused the Debian Bug report #855102,
regarding theano: SamplingDot broken on negative-stride arrays
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.)


-- 
855102: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=855102
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---

Package: theano
Version: 0.8.2-3
Severity: important
Control: tags -1 upstream

Because Numpy arrays' data pointer is the first element in *index* order 
but BLAS expects the first element in *memory* order, simply calling a 
BLAS function as in SamplingDotCSR 
(https://sources.debian.net/src/theano/0.8.2-4/theano/sparse/opt.py/#L1902) 
doesn't work on negative-stride arrays:


import theano
import theano.sparse
import theano.tensor
import numpy as np
import scipy.sparse
x=[theano.tensor.matrix(),theano.tensor.matrix(),theano.sparse.csr_matrix()]
f=theano.function(x,theano.sparse.sampling_dot(*x))
m1=np.random.rand(3,5)
m2=np.random.rand(8,5)
m3=m2[::-1,::-1]#negative strides
p=scipy.sparse.csr_matrix(np.zeros((3,8)))
p[1,2]=1
print(f(m1,m2,p)[1,2],np.dot(m1,m2.T)[1,2])#equal
print(f(m1,m3,p)[1,2],np.dot(m1,m3.T)[1,2],f(m1,np.array(m3),p)[1,2])#should 
be equal, but aren't


I expect to post a fix tonight (mostly a copy from UsmmCscDense, plus 
c_code_cache_version bump).
--- End Message ---
--- Begin Message ---
Source: theano
Source-Version: 0.8.2-6~exp1

We believe that the bug you reported is fixed in the latest version of
theano, 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 855...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Daniel Stender  (supplier of updated theano 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: SHA512

Format: 1.8
Date: Wed, 15 Feb 2017 00:08:13 +0100
Source: theano
Binary: python-theano python3-theano theano-doc
Architecture: source amd64 all
Version: 0.8.2-6~exp1
Distribution: experimental
Urgency: medium
Maintainer: Debian Science Maintainers 

Changed-By: Daniel Stender 
Description:
 python-theano - CPU/GPU math expression compiler for Python
 python3-theano - CPU/GPU math expression compiler for Python 3
 theano-doc - CPU/GPU math expression compiler for Python (docs)
Closes: 831541 835531 855102
Changes:
 theano (0.8.2-6~exp1) experimental; urgency=medium
 .
   * add disable-overly-environment-dependent-test.patch (Closes: #835531).
   * add fix-invalid-casts-negative-stride-handling.patch
 (Closes: #831541,#855102) [thanks again to Rebecca N. Palmer].
Checksums-Sha1:
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theano_0.8.2-6~exp1_amd64.buildinfo
Files:
 452c973913ba40026fe76cc9e40ccf8e 2711 science optional 

Bug#835531: marked as done (theano: fail of test_csr_correct_output_faster_than_scipy at times (FTBFS))

[Debian Bug Tracking System]

Your message dated Tue, 14 Feb 2017 23:34:06 +
with message-id 
and subject line Bug#835531: fixed in theano 0.8.2-6~exp1
has caused the Debian Bug report #835531,
regarding theano: fail of test_csr_correct_output_faster_than_scipy at times 
(FTBFS)
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.)


-- 
835531: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=835531
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: theano
Version: 0.8.2-3
Severity: serious
Justification: fails to build from source (but built successfully in the past)

Current theano now fails also on amd64:


FAIL: test_csr_correct_output_faster_than_scipy 
(theano.sparse.tests.test_basic.test_structureddot)
--
Traceback (most recent call last):
  File "/build-1st/theano-0.8.2/theano/sparse/tests/test_basic.py", line 1218, 
in test_csr_correct_output_faster_than_scipy
scipy_time, overhead_rtol, overhead_tol))
AssertionError: (0.016754150390625, 0.015386821746826172, 0.012169837951660156, 
1.1, 0.002)

--
Ran 2995 tests in 17686.047s

FAILED (SKIP=113, failures=1)


DS

-- System Information:
Debian Release: stretch/sid
  APT prefers testing
  APT policy: (500, 'testing'), (1, 'experimental')
Architecture: amd64 (x86_64)

Kernel: Linux 4.5.0-2-amd64 (SMP w/4 CPU cores)
Locale: LANG=de_DE.utf8, LC_CTYPE=de_DE.utf8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)
--- End Message ---
--- Begin Message ---
Source: theano
Source-Version: 0.8.2-6~exp1

We believe that the bug you reported is fixed in the latest version of
theano, 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.
Daniel Stender  (supplier of updated theano 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: SHA512

Format: 1.8
Date: Wed, 15 Feb 2017 00:08:13 +0100
Source: theano
Binary: python-theano python3-theano theano-doc
Architecture: source amd64 all
Version: 0.8.2-6~exp1
Distribution: experimental
Urgency: medium
Maintainer: Debian Science Maintainers 

Changed-By: Daniel Stender 
Description:
 python-theano - CPU/GPU math expression compiler for Python
 python3-theano - CPU/GPU math expression compiler for Python 3
 theano-doc - CPU/GPU math expression compiler for Python (docs)
Closes: 831541 835531 855102
Changes:
 theano (0.8.2-6~exp1) experimental; urgency=medium
 .
   * add disable-overly-environment-dependent-test.patch (Closes: #835531).
   * add fix-invalid-casts-negative-stride-handling.patch
 (Closes: #831541,#855102) [thanks again to Rebecca N. Palmer].
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theano-doc_0.8.2-6~exp1_all.deb
 

Bug#831541: marked as done (theano: single GradientError and WrongValues in tests on s390x, ppc64 and sparc)

[Debian Bug Tracking System]

Your message dated Tue, 14 Feb 2017 23:34:06 +
with message-id 
and subject line Bug#831541: fixed in theano 0.8.2-6~exp1
has caused the Debian Bug report #831541,
regarding theano: single GradientError and WrongValues in tests on s390x, ppc64 
and sparc
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.)


-- 
831541: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=831541
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: theano
Version: 0.8.2-2
Severity: normal

The tests on s390x came up with three single errors (shortened) [1]:


ERROR: test_grad (theano.sparse.tests.test_basic.SamplingDotTester)
--
GradientError: GradientError: numeric gradient and analytic gradient exceed 
tolerance:
At position 0 of argument 0,
abs. error = 4.801748,  abs. tolerance = 0.000100
rel. error = 1.00,  rel. tolerance = 0.000100
Exception args: 
The error happened with the following inputs:, [array([[ 4.,  2.,  2.],
   [ 0.,  1.,  3.],
   [ 1.,  0.,  0.],



ERROR: test_op (theano.sparse.tests.test_basic.SamplingDotTester)
--
WrongValue: WrongValue
   : shape, dtype, strides, min, max, n_inf, n_nan:
  Expected : (4, 5) float64 (40, 8) 0.0 28.0 0 0 
  Value: (4, 5) float64 (40, 8) 0.0 0.0 0 0 
  expected: [[ 28.   0.   0.   0.   0.]
 [ 12.   9.  11.   0.   0.]
 [  4.   1.   0.   2.   0.]
 [  0.   8.   0.   0.   0.]]



ERROR: test (theano.sparse.tests.test_basic.UsmmTests)
--
Traceback (most recent call last):
  File "/«PKGBUILDDIR»/theano/sparse/tests/test_basic.py", line 1458, in test
utt.assert_allclose(f_a_out, f_b_out, rtol=rtol, atol=atol)
  File "/«PKGBUILDDIR»/theano/tests/unittest_tools.py", line 339, in 
assert_allclose
raise WrongValue(val1, val2, rtol, atol)
WrongValue: WrongValue
   : shape, dtype, strides, min, max, n_inf, n_nan:
  Expected : (10, 200) float32 (800, 4) -0.999263 0.999721 0 0 
  Value: (10, 200) float32 (800, 4) -20.3578 20.3085 0 0 
  expected: [[ 0.43297213 -0.99617213 -0.94651264 ...,  0.90926737  
0.87269104
   0.18024164]


The same errors occurs on ppc64 [2].

This is a regression from 0.8.2-2 (0.8.2-1 was build with `FAST_COMPILE` and 
this didn't
came up then). dh_auto_test is temporarily failsafed, this is going to be 
removed when
this problem is solved.

Thanks,
DS

[1] 
https://buildd.debian.org/status/fetch.php?pkg=theano=s390x=0.8.2-2=1468619676

[2] 
https://buildd.debian.org/status/fetch.php?pkg=theano=ppc64=0.8.2-3=1468725341

-- System Information:
Debian Release: stretch/sid
  APT prefers testing
  APT policy: (500, 'testing'), (1, 'experimental')
Architecture: amd64 (x86_64)

Kernel: Linux 4.5.0-2-amd64 (SMP w/4 CPU cores)
Locale: LANG=de_DE.utf8, LC_CTYPE=de_DE.utf8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)
--- End Message ---
--- Begin Message ---
Source: theano
Source-Version: 0.8.2-6~exp1

We believe that the bug you reported is fixed in the latest version of
theano, 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 831...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Daniel Stender  (supplier of updated theano 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: SHA512

Format: 1.8
Date: Wed, 15 Feb 2017 00:08:13 +0100
Source: theano
Binary: python-theano python3-theano theano-doc
Architecture: source amd64 all
Version: 0.8.2-6~exp1
Distribution: experimental
Urgency: medium
Maintainer: Debian Science Maintainers 

Changed-By: Daniel Stender 
Description:
 python-theano - CPU/GPU math expression compiler for Python
 python3-theano - CPU/GPU math expression compiler for Python 3
 theano-doc - CPU/GPU math expression compiler for Python (docs)
Closes: 831541 835531 855102
Changes:
 theano (0.8.2-6~exp1) experimental; 

theano_0.8.2-6~exp1_amd64.changes ACCEPTED into experimental

[Debian FTP Masters]

Accepted:

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA512

Format: 1.8
Date: Wed, 15 Feb 2017 00:08:13 +0100
Source: theano
Binary: python-theano python3-theano theano-doc
Architecture: source amd64 all
Version: 0.8.2-6~exp1
Distribution: experimental
Urgency: medium
Maintainer: Debian Science Maintainers 

Changed-By: Daniel Stender 
Description:
 python-theano - CPU/GPU math expression compiler for Python
 python3-theano - CPU/GPU math expression compiler for Python 3
 theano-doc - CPU/GPU math expression compiler for Python (docs)
Closes: 831541 835531 855102
Changes:
 theano (0.8.2-6~exp1) experimental; urgency=medium
 .
   * add disable-overly-environment-dependent-test.patch (Closes: #835531).
   * add fix-invalid-casts-negative-stride-handling.patch
 (Closes: #831541,#855102) [thanks again to Rebecca N. Palmer].
Checksums-Sha1:
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Files:
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theano_0.8.2.orig.tar.xz
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theano_0.8.2-6~exp1.debian.tar.xz
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python-theano_0.8.2-6~exp1_amd64.deb
 b01af62fb83abbcd679b8dd776f1dbd3 1952462 python optional 
python3-theano_0.8.2-6~exp1_amd64.deb
 2db04c2e1485d7d8bcb7ced56c6628a1 2732654 doc optional 
theano-doc_0.8.2-6~exp1_all.deb
 099d0ed0508040e5cba3cc6fef53acc6 10085 science optional 
theano_0.8.2-6~exp1_amd64.buildinfo

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Processing of theano_0.8.2-6~exp1_amd64.changes

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theano_0.8.2-6~exp1_amd64.changes uploaded successfully to localhost
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  theano_0.8.2-6~exp1.dsc
  theano_0.8.2.orig.tar.xz
  theano_0.8.2-6~exp1.debian.tar.xz
  python-theano_0.8.2-6~exp1_amd64.deb
  python3-theano_0.8.2-6~exp1_amd64.deb
  theano-doc_0.8.2-6~exp1_all.deb
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Processed: severity 835531

[Debian Bug Tracking System]

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

> severity 835531 important
Bug #835531 [src:theano] theano: fail of 
test_csr_correct_output_faster_than_scipy at times (FTBFS)
Severity set to 'important' from 'serious'
> thanks
Stopping processing here.

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Processed: Re: Processed (with 1 error):

[Debian Bug Tracking System]

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

> tags 855102 patch
Bug #855102 [theano] theano: SamplingDot broken on negative-stride arrays
Added tag(s) patch.
> tags 831541 patch
Bug #831541 [src:theano] theano: single GradientError and WrongValues in tests 
on s390x, ppc64 and sparc
Added tag(s) patch.
> tags 835531 patch
Bug #835531 [src:theano] theano: fail of 
test_csr_correct_output_faster_than_scipy at times (FTBFS)
Added tag(s) patch.
>
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Bug#835531: theano: fail of test_csr_correct_output_faster_than_scipy at times (FTBFS)

[Rebecca N. Palmer]

I agree that failing a build for a timing test such as this is 
inherently unreliable...so let's turn it off.


(Tested only in sparse/tests/test_basic.py, not a full build.)

It may be that theano is slower because it's using a 
lowest-common-denominator BLAS while numpy does runtime processor 
detection, as recently discussed at
https://lists.debian.org/debian-science/2017/02/msg00043.html , but now 
is not the time to be fixing that.
Description: Disable overly environment-dependent test

Testing speed by wall-clock time is inherently unreliable on a
shared machine such as Debian's buildds:
don't let it fail the whole build.

Author: Rebecca N. Palmer 
Bug-Debian: https://bugs.debian.org/835531
Forwarded: not-needed

diff --git a/theano/sparse/tests/test_basic.py b/theano/sparse/tests/test_basic.py
index 8c183b9..03d79f1 100644
--- a/theano/sparse/tests/test_basic.py
+++ b/theano/sparse/tests/test_basic.py
@@ -1209,8 +1209,8 @@ class test_structureddot(unittest.TestCase):
 overhead_tol = 0.002  # seconds
 overhead_rtol = 1.1  # times as long
 utt.assert_allclose(scipy_result, theano_result)
-if (not theano.config.mode in ["DebugMode", "DEBUG_MODE"] and
-theano.config.cxx):
+
+if 0:#(not theano.config.mode in ["DebugMode", "DEBUG_MODE"] and theano.config.cxx):
 self.assertFalse(
 theano_time > overhead_rtol * scipy_time + overhead_tol,
 (theano_time,

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Bug#855102: (no subject)

[Rebecca N. Palmer]

Control: tags -1 patch
(Combined patch for both bugs as the changes are so close together, but 
you *can* do the obvious split if you only want to fix one.)


This has been tested only by running sparse/test_basic.py and #855102's 
example from the source tree, *not* a full build.  This confirms that it 
does fix #855102, but I can't test for #831541 (due to several qemu 
bugs).  The syntax for running a single test is nosetests3 -v 
'/path/to/theano/theano/sparse/tests/test_basic.py':SamplingDotTester.test_op


I intend to send this upstream tomorrow.
Description: Fix invalid casts and negative stride handling

Cast values, not pointers, from int64 to int32.

Remember that first-in-index order (numpy) and
first-in-memory-order (BLAS) are not always the same thing.

Bump c_code_cache_version to make sure existing installs use the fixes.

Author: Rebecca N. Palmer 
Bug-Debian: https://bugs.debian.org/855102 https://bugs.debian.org/831541
Forwarded: not yet

diff --git a/theano/sparse/opt.py b/theano/sparse/opt.py
index 6100405..d1c2b54 100644
--- a/theano/sparse/opt.py
+++ b/theano/sparse/opt.py
@@ -829,7 +829,11 @@ class UsmmCscDense(gof.Op):
 npy_intp Sind = PyArray_STRIDES(%(x_ind)s)[0] / PyArray_DESCR(%(x_ind)s)->elsize;
 npy_intp Sptr = PyArray_STRIDES(%(x_ptr)s)[0] / PyArray_DESCR(%(x_ptr)s)->elsize;
 npy_intp Sy = PyArray_STRIDES(%(y)s)[1] / PyArray_DESCR(%(y)s)->elsize;
-
+
+// blas expects ints; convert here (rather than just making N etc ints) to avoid potential overflow in the negative-stride correction
+int N32 = N;
+int Sy32 = Sy;
+int Szn32 = Szn;
 
 if (!(%(inplace)s))
 {
@@ -859,7 +863,7 @@ class UsmmCscDense(gof.Op):
 if (Szn < 0)
 z_row += (N - 1) * Szn;
 
-%(axpy)s((int*), (%(conv_type)s*), (%(conv_type)s*)y_row, (int*), (%(conv_type)s*)z_row, (int*));
+%(axpy)s(, (%(conv_type)s*), (%(conv_type)s*)y_row, , (%(conv_type)s*)z_row, );
 }
 }
 }
@@ -868,7 +872,7 @@ class UsmmCscDense(gof.Op):
 return rval
 
 def c_code_cache_version(self):
-return (1, blas.blas_header_version())
+return (1, blas.blas_header_version(), 0xdeb1a)
 usmm_csc_dense = UsmmCscDense(inplace=False)
 usmm_csc_dense_inplace = UsmmCscDense(inplace=True)
 
@@ -1748,7 +1752,7 @@ class SamplingDotCSR(gof.Op):
 ])
 
 def c_code_cache_version(self):
-return (2, blas.blas_header_version())
+return (2, blas.blas_header_version(), 0xdeb1a)
 
 def c_support_code(self):
 return blas.blas_header_text()
@@ -1891,6 +1895,11 @@ PyErr_SetString(PyExc_NotImplementedError, "rank(y) != 2"); %(fail)s;}
 memcpy(Dzi, Dpi, PyArray_DIMS(%(p_ind)s)[0]*sizeof(dtype_%(p_ind)s));
 memcpy(Dzp, Dpp, PyArray_DIMS(%(p_ptr)s)[0]*sizeof(dtype_%(p_ptr)s));
 
+// blas expects ints; convert here (rather than just making K etc ints) to avoid potential overflow in the negative-stride correction
+int K32 = K;
+int Sdx32 = Sdx;
+int Sdy32 = Sdy;
+
 for (npy_int32 m = 0; m < M; ++m) {
 for (npy_int32 n_idx = Dpp[m * Sdpp]; n_idx < Dpp[(m+1)*Sdpp]; ++n_idx) {
 const npy_int32 n = Dpi[n_idx * Sdpi]; // row index of non-null value for column K
@@ -1898,8 +1907,15 @@ PyErr_SetString(PyExc_NotImplementedError, "rank(y) != 2"); %(fail)s;}
 const dtype_%(x)s* x_row = (dtype_%(x)s*)(PyArray_BYTES(%(x)s) + PyArray_STRIDES(%(x)s)[0] * m);
 
 const dtype_%(y)s* y_col = (dtype_%(y)s*)(PyArray_BYTES(%(y)s) + PyArray_STRIDES(%(y)s)[0] * n);
+// dot expects pointer to the beginning of memory arrays,
+// so when the stride is negative, we need to get the
+// last element
+if (Sdx < 0)
+x_row += (K - 1) * Sdx;
+if (Sdy < 0)
+y_col += (K - 1) * Sdy;
 
-Dzd[n_idx * Sdzd] = Dpd[n_idx * Sdpd] * %(cdot)s((int*), (const %(conv_type)s*)x_row, (int*), (const %(conv_type)s*)y_col, (int*));
+Dzd[n_idx * Sdzd] = Dpd[n_idx * Sdpd] * %(cdot)s(, (const %(conv_type)s*)x_row, , (const %(conv_type)s*)y_col, );
 }
 }
 }
diff --git a/theano/sparse/tests/test_basic.py b/theano/sparse/tests/test_basic.py
index 8c183b9..03d79f1 100644
--- a/theano/sparse/tests/test_basic.py
+++ b/theano/sparse/tests/test_basic.py
@@ -3085,6 +3085,20 @@ class SamplingDotTester(utt.InferShapeTester):
 assert tested.format == 'csr'
 assert tested.dtype == expected.dtype
 
+def test_negative_stride(self):
+f = theano.function(
+self.x,
+sampling_dot(*self.x))
+
+

Processed: Re: saga: ftbfs with GCC-7

[Debian Bug Tracking System]

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

> reassign 853650 src:libvigraimpex
Bug #853650 [src:saga] saga: ftbfs with GCC-7
Bug reassigned from package 'src:saga' to 'src:libvigraimpex'.
No longer marked as found in versions saga/2.3.1+dfsg-3.
Ignoring request to alter fixed versions of bug #853650 to the same values 
previously set
> affects 853650 src:saga
Bug #853650 [src:libvigraimpex] saga: ftbfs with GCC-7
Added indication that 853650 affects src:saga
> thanks
Stopping processing here.

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Processed: 855130 found in release 3.0.6-10.1

[Debian Bug Tracking System]

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

> found 855130 3.0.6-10.1
Bug #855130 [src:med-fichier] med-fichier: MED library is not compatible with 
HDF5 1.10
Marked as found in versions med-fichier/3.0.6-10.1.
> thanks
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gts 0.7.6+darcs121130-4 MIGRATED to testing

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  Previous version: 0.7.6+darcs121130-1.2
  Current version:  0.7.6+darcs121130-4

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Bug#855130: med-fichier: MED library is not compatible with HDF5 1.10

[Gilles Filippini]

Source: med-fichier
Version: 3.0.6-11
Severity: grave
Justification: renders package unusable

Hi,

From the Salome Platform support forum [1]:

> Problems with Salome and Code Saturne in Debian
> Posted by Elektrix at January 03. 2017
> 
> Hello all,
> 
> I'm trying to set up a CFD case with Salome, export the mesh in a MED file 
> and then process it with Code Saturne. CS doesn't read the MED file and gives 
> the error in the preprocessing stage:
> 
> _MEDdatasetRd.c [139] : Erreur à la lecture du dataset
> _MEDdatasetRd.c [139] : COO
> HDF5-DIAG: Error detected in HDF5 (1.10.0-patch1) thread 0:
>   #000: ../../../src/H5Dio.c line 170 in H5Dread(): can't read data
> major: Dataset
> minor: Read failed
>   #001: ../../../src/H5Dio.c line 418 in H5D__read(): unable to set up type 
> info
> major: Dataset
> minor: Unable to initialize object
>   #002: ../../../src/H5Dio.c line 953 in H5D__typeinfo_init(): not a datatype
> major: Invalid arguments to routine
> minor: Inappropriate type
> _MEDdatasetRd.c [142] : _dataset = 2
> _MEDdatasetRd.c [143] : _i = 0
> _MEDdatasetRd.c [144] : (*filter).memspace[_i] = 2
> _MEDdatasetRd.c [145] : (*filter).diskspace[_i] = 3
> _MEDmeshAdvancedRd30.c [462] : Erreur à la lecture du dataset
> _MEDmeshAdvancedRd30.c [462] :
> _MEDmeshAdvancedRd30.c [463] : meshname = "Mesh_water"
> _MEDmeshAdvancedRd30.c [463] : numit = -1
> _MEDmeshAdvancedRd30.c [463] : numdt = -1
> _MEDmeshAdvancedRd30.c [463] : _datagroupname2 = "NOE"
> _MEDmeshAdvancedRd30.c [464] : _datagroupname3 = ""
> _MEDmeshAdvancedRd30.c [464] : _profilename = "MED_NO_PROFILE_INTERNAL"
> 
> The problem can be because I installed Salome from the SALOME-7.6.0-DB07.tgz 
> archive whilst Code Saturne is a Debian package and is installed via the 
> Debian package system which is much easier than installing the original 
> package. So the med and hdf5 libraries of CS come from the Debian 
> repositories. I can't use newer versions of Salome (7.7.1 or 7.8.0) as they 
> produce MED3.1 files but my CS reads only MED3.0 files.
> 
> The details of my machine:
> 
> Debian stretch (testing) on AMD64
> 
> Salome 7.6.0 from SALOME-7.6.0-DB07.tgz
> 
> Code Saturne 4.3 Debian package
> 
> libmed 3.0.6-10.1 Debian package
> 
> hdf5 1.10.0 Debian package
> 
> Not knowing if this problem comes from how I create the mesh I tried to run 
> one of the test cases from the Code Saturne tutorials but ran into other 
> problems.
> 
> If you need any other information pleas let me know. Any hint on how to go 
> further is very welcome.
> 
> Best regards
> 
> Elektrix



> Re: Problems with Salome and Code Saturne in Debian
> Posted by Yvan Fournier at Monday 16:21
> 
> Hello,
> 
> I was contacted by the Debian maintainer relative to this, so it seems the 
> bug was reported.
> 
> The root problem is that the MED library is not compatible with HDF5 1.10 
> yet. So reverting to HDF5 1.8 as indicated is the solution for now, but the 
> better solution would be for MED to handle compatibility with both HDF5 1.8 
> and HDF5 1.10 (or at least 1.10 for future versions).
> 
> Best regards,
> 
> Yvan

[1] http://www.salome-platform.org/forum/forum_9/122041955

Thanks,

_g.
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Actualizacion de correo electronico

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Bug#831541: theano: single GradientError and WrongValues in tests on s390x, ppc64 and sparc

[Daniel Stender]

On 14.02.2017 08:43, Rebecca N. Palmer wrote:
> Found the problem: the affected functions ( 
> https://sources.debian.net/src/theano/0.8.2-4/theano/sparse/opt.py/#L862 , 
> https://sources.debian.net/src/theano/0.8.2-4/theano/sparse/opt.py/#L1902 ) 
> cast a pointer-to-intptr_t (64 bit) to a pointer-to-int (32-bit).
> 
> Which isn't just broken on big-endian systems, it's a strict aliasing 
> violation *everywhere* (i.e. technically undefined behaviour with 
> optimization on, which it is by default, though it appears to work in 
> practice).
> 
> (I expect to post a patch tonight: the obvious has a potential overflow 
> issue, and it also needs a c_code_cache_version change to make the fix be 
> used in existing installs).

That would be sensational. #835531 doesn't keep up being RC, that would mean 
that we're through
to Stretch if this bug could be closed. Much thx in advance!

Daniel

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theano_0.8.2-5_multi.changes ACCEPTED into unstable

[Debian FTP Masters]

Accepted:

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA512

Format: 1.8
Date: Tue, 14 Feb 2017 09:47:30 +0100
Source: theano
Binary: python-theano python3-theano theano-doc
Architecture: all source
Version: 0.8.2-5
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers 

Changed-By: Daniel Stender 
Description: 
 python3-theano - CPU/GPU math expression compiler for Python 3
 python-theano - CPU/GPU math expression compiler for Python
 theano-doc - CPU/GPU math expression compiler for Python (docs)
Changes:
 theano (0.8.2-5) unstable; urgency=medium
 .
   *  Upload to unstable.
Checksums-Sha1: 
 ffd714d8b2d09b4291296282cdf9725b8f96726a 2691 theano_0.8.2-5.dsc
 a240e2e8f84b3051ff54dc019926c303565b7f5f 5440296 theano_0.8.2.orig.tar.xz
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Checksums-Sha256: 
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theano_0.8.2-5.dsc
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theano_0.8.2.orig.tar.xz
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theano-doc_0.8.2-5_all.deb
Files: 
 f18af8312a8371b6910abe5c467ecabd 2691 science optional theano_0.8.2-5.dsc
 157870e0bd8f71b4f751f9c1416f5ad5 5440296 science optional 
theano_0.8.2.orig.tar.xz
 419ac9f955c6531bdec7b6c16a9305db 358808 science optional 
theano_0.8.2-5.debian.tar.xz
 d892a99336ef3b2a099fb9ed39b2444b 2732968 doc optional 
theano-doc_0.8.2-5_all.deb

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Thank you for your contribution to Debian.

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Bug#835531: fail of test_csr_correct_output_faster_than_scipy at times (FTBFS)

[Daniel Stender]

On 14.02.2017 08:59, Ole Streicher wrote:
> Hi Daniel,
> 
> I don't really see why you declare this failure as "serious". From the
> source (and the bug name), it basically means that theano took a bit
> longer to calculate than scipy for the same calculation. This may depend
> on the scipy version and optimization, and also on the timing (load)
> during the test -- it is calendar time what is taken here.
> 
> IMO, the failure is severity "normal", maybe you could consider
> resetting the severity to this value?
> 
> Best regards
> 
> Ole

Yes, in the meanwhile, I've thought into the same direction. The latest build 
(0.8.2-5~exp1)
succeeded again without this appeared anywhere. I'll do that.

Daniel

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visp_3.0.1-2_amd64.changes ACCEPTED into unstable

[Debian FTP Masters]

Accepted:

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 13 Feb 2017 17:52:30 +0100
Source: visp
Binary: libvisp-dev libvisp-core-dev libvisp-core3.0 libvisp-core3.0-dbg 
libvisp-gui-dev libvisp-gui3.0 libvisp-gui3.0-dbg libvisp-io-dev libvisp-io3.0 
libvisp-io3.0-dbg libvisp-detection-dev libvisp-detection3.0 
libvisp-detection3.0-dbg libvisp-ar-dev libvisp-ar3.0 libvisp-ar3.0-dbg 
libvisp-blob-dev libvisp-blob3.0 libvisp-blob3.0-dbg libvisp-me-dev 
libvisp-me3.0 libvisp-me3.0-dbg libvisp-klt-dev libvisp-klt3.0 
libvisp-klt3.0-dbg libvisp-sensor-dev libvisp-sensor3.0 libvisp-sensor3.0-dbg 
libvisp-robot-dev libvisp-robot3.0 libvisp-robot3.0-dbg 
libvisp-visual-features-dev libvisp-visual-features3.0 
libvisp-visual-features3.0-dbg libvisp-vision-dev libvisp-vision3.0 
libvisp-vision3.0-dbg libvisp-vs-dev libvisp-vs3.0 libvisp-vs3.0-dbg 
libvisp-mbt-dev libvisp-mbt3.0 libvisp-mbt3.0-dbg libvisp-tt-dev libvisp-tt3.0 
libvisp-tt3.0-dbg libvisp-tt-mi-dev libvisp-tt-mi3.0 libvisp-tt-mi3.0-dbg 
libvisp-doc
Architecture: source amd64 all
Version: 3.0.1-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers 

Changed-By: Fabien Spindler 
Description:
 libvisp-ar-dev - development files for libvisp-ar
 libvisp-ar3.0 - visual servoing platform ar library
 libvisp-ar3.0-dbg - Debugging symbol for libvisp-ar3.0
 libvisp-blob-dev - development files for libvisp-blob
 libvisp-blob3.0 - visual servoing platform blob tracking library
 libvisp-blob3.0-dbg - Debugging symbol for libvisp-blob3.0
 libvisp-core-dev - development files for libvisp-core
 libvisp-core3.0 - visual servoing platform core library
 libvisp-core3.0-dbg - Debugging symbol for libvisp-core3.0
 libvisp-detection-dev - development files for libvisp-detection
 libvisp-detection3.0 - visual servoing platform detection library
 libvisp-detection3.0-dbg - Debugging symbol for libvisp-detection3.0
 libvisp-dev - development files for ViSP
 libvisp-doc - visual servoing library - documentation
 libvisp-gui-dev - development files for libvisp-gui
 libvisp-gui3.0 - visual servoing platform gui library
 libvisp-gui3.0-dbg - Debugging symbol for libvisp-gui3.0
 libvisp-io-dev - development files for libvisp-io
 libvisp-io3.0 - visual servoing platform io library
 libvisp-io3.0-dbg - Debugging symbol for libvisp-io3.0
 libvisp-klt-dev - development files for libvisp-klt
 libvisp-klt3.0 - visual servoing platform klt tracking library
 libvisp-klt3.0-dbg - Debugging symbol for libvisp-klt3.0
 libvisp-mbt-dev - development files for libvisp-mbt
 libvisp-mbt3.0 - visual servoing platform mbt library
 libvisp-mbt3.0-dbg - Debugging symbol for libvisp-mbt3.0
 libvisp-me-dev - development files for libvisp-me
 libvisp-me3.0 - visual servoing platform me tracking library
 libvisp-me3.0-dbg - Debugging symbol for libvisp-me3.0
 libvisp-robot-dev - development files for libvisp-robot
 libvisp-robot3.0 - visual servoing platform robot library
 libvisp-robot3.0-dbg - Debugging symbol for libvisp-robot3.0
 libvisp-sensor-dev - development files for libvisp-sensor
 libvisp-sensor3.0 - visual servoing platform sensor library
 libvisp-sensor3.0-dbg - Debugging symbol for libvisp-sensor3.0
 libvisp-tt-dev - development files for libvisp-tt
 libvisp-tt-mi-dev - development files for libvisp-tt-mi
 libvisp-tt-mi3.0 - visual servoing platform tt-mi library
 libvisp-tt-mi3.0-dbg - Debugging symbol for libvisp-tt-mi3.0
 libvisp-tt3.0 - visual servoing platform tt library
 libvisp-tt3.0-dbg - Debugging symbol for libvisp-tt3.0
 libvisp-vision-dev - development files for libvisp-vision
 libvisp-vision3.0 - visual servoing platform vision library
 libvisp-vision3.0-dbg - Debugging symbol for libvisp-vision3.0
 libvisp-visual-features-dev - development files for libvisp-visual-features
 libvisp-visual-features3.0 - visual servoing platform visual-features library
 libvisp-visual-features3.0-dbg - Debugging symbol for 
libvisp-visual-features3.0
 libvisp-vs-dev - development files for libvisp-vs
 libvisp-vs3.0 - visual servoing platform vs library
 libvisp-vs3.0-dbg - Debugging symbol for libvisp-vs3.0
Changes:
 visp (3.0.1-2) unstable; urgency=medium
 .
   * Force ctest -j1
Checksums-Sha1:
 1a3cebdda25e6e71abbbae270c476f884f7313ab 5431 visp_3.0.1-2.dsc
 63d69a86b979c73dc2661efe67477b4e826a7c57 16044 visp_3.0.1-2.debian.tar.xz
 e4042cd605ad11ecffabb77c858b4754a6749394 31752 libvisp-ar-dev_3.0.1-2_amd64.deb
 cdb5d648bc3300e6d583bb46acbec74ff72dcb7e 438074 
libvisp-ar3.0-dbg_3.0.1-2_amd64.deb
 37d9ea036fc49feac95f4e1f18eee77a4490d809 52748 libvisp-ar3.0_3.0.1-2_amd64.deb
 50175d475b71f281769f1d039021d5fbe8b2c528 31144 
libvisp-blob-dev_3.0.1-2_amd64.deb
 7fe39c576f04a70cfbd3de6ec6b2d07249f85c7f 202370 
libvisp-blob3.0-dbg_3.0.1-2_amd64.deb
 f117b584b870cf3302e2237e8a7b9e5491008a43 52268 
libvisp-blob3.0_3.0.1-2_amd64.deb
 f82691fd43620e97898b7731240def0fd7759e20 

Bug#835531: fail of test_csr_correct_output_faster_than_scipy at times (FTBFS)

[Ole Streicher]

Hi Daniel,

I don't really see why you declare this failure as "serious". From the
source (and the bug name), it basically means that theano took a bit
longer to calculate than scipy for the same calculation. This may depend
on the scipy version and optimization, and also on the timing (load)
during the test -- it is calendar time what is taken here.

IMO, the failure is severity "normal", maybe you could consider
resetting the severity to this value?

Best regards

Ole

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