Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
All the PyArray_FLOAT*, ... to NPY_FLOAT*.
PyObject *var;
PyArrayObject * var_arr;
var_arr-{dimensions,strides,nd,descr} to PyArray_{DIMS,...}(var_arr),
need macro
PyArray_ISCONTIGUOUS(var) to PyArray_ISCONTIGUOUS(var_arr)
PyArray_{DATA,STRIDES,GETPTR2}(var) to PyArray_{DATA,STRIDES}(var_arr)
The sed script didn't replace NPY_ALIGNED to NPY_ARRAY_ALIGNED. idem
for NPY_WRITABLE, NPY_UPDATE_ALL, NPY_C_CONTIGUOUS, NPY_F_CONTIGUOUS,
The sed script did change as well, but I think it should not be
deprecated. This flag NPY_ARRAY_ENSURECOPY is a new one. It was not
existing in numpy 1.6.0. We try to stay compitible with numpy 1.3
(maybe we will bump to numpy 1.4). This is the info on when this line
was introduced:
263df0cc (Mark Wiebe 2011-07-19 17:06:08 -0500 784) #define
NPY_ARRAY_ENSURECOPY 0x0020
In the trunk of Theano, I'll define NPY_ARRAY_ENSURECOPY for older
version of numpy.
PyArray_SetBaseObject
On Tue, Sep 4, 2012 at 6:31 PM, Ondřej Čertík ondrej.cer...@gmail.com wrote:
On Sat, Sep 1, 2012 at 2:19 AM, Sandro Tosi mo...@debian.org wrote:
On Fri, Aug 31, 2012 at 8:07 PM, Sandro Tosi mo...@debian.org wrote:
On Fri, Aug 31, 2012 at 7:17 PM, Ondřej Čertík ondrej.cer...@gmail.com
wrote:
If you could create issues at github: https://github.com/numpy/numpy/issues
that would be great. If you have time, also with some info about the
platform
and how to reproduce it. Or at least a link to the build logs.
I've reported it here: https://github.com/numpy/numpy/issues/402
I've just spammed the issue tracker with additional issues, reporting
all the test suite failures on Debian architectures; issues are 406 -
414 .
Don't hesitate to contact me if you need any support or clarification.
Thanks Sandro for reporting it! I put all of them into my release issue:
https://github.com/numpy/numpy/issues/396
most of the failures seem to be caused by these two issues:
https://github.com/numpy/numpy/issues/394
https://github.com/numpy/numpy/issues/426
so I am looking into this now.
Ondrej
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Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
Hi,
forget this email, it was sent by error. I'll write the info in a new
email in a few minutes.
Fred
On Sun, Sep 9, 2012 at 1:08 PM, Frédéric Bastien no...@nouiz.org wrote:
All the PyArray_FLOAT*, ... to NPY_FLOAT*.
PyObject *var;
PyArrayObject * var_arr;
var_arr-{dimensions,strides,nd,descr} to PyArray_{DIMS,...}(var_arr),
need macro
PyArray_ISCONTIGUOUS(var) to PyArray_ISCONTIGUOUS(var_arr)
PyArray_{DATA,STRIDES,GETPTR2}(var) to PyArray_{DATA,STRIDES}(var_arr)
The sed script didn't replace NPY_ALIGNED to NPY_ARRAY_ALIGNED. idem
for NPY_WRITABLE, NPY_UPDATE_ALL, NPY_C_CONTIGUOUS, NPY_F_CONTIGUOUS,
The sed script did change as well, but I think it should not be
deprecated. This flag NPY_ARRAY_ENSURECOPY is a new one. It was not
existing in numpy 1.6.0. We try to stay compitible with numpy 1.3
(maybe we will bump to numpy 1.4). This is the info on when this line
was introduced:
263df0cc (Mark Wiebe 2011-07-19 17:06:08 -0500 784) #define
NPY_ARRAY_ENSURECOPY 0x0020
In the trunk of Theano, I'll define NPY_ARRAY_ENSURECOPY for older
version of numpy.
PyArray_SetBaseObject
On Tue, Sep 4, 2012 at 6:31 PM, Ondřej Čertík ondrej.cer...@gmail.com wrote:
On Sat, Sep 1, 2012 at 2:19 AM, Sandro Tosi mo...@debian.org wrote:
On Fri, Aug 31, 2012 at 8:07 PM, Sandro Tosi mo...@debian.org wrote:
On Fri, Aug 31, 2012 at 7:17 PM, Ondřej Čertík ondrej.cer...@gmail.com
wrote:
If you could create issues at github:
https://github.com/numpy/numpy/issues
that would be great. If you have time, also with some info about the
platform
and how to reproduce it. Or at least a link to the build logs.
I've reported it here: https://github.com/numpy/numpy/issues/402
I've just spammed the issue tracker with additional issues, reporting
all the test suite failures on Debian architectures; issues are 406 -
414 .
Don't hesitate to contact me if you need any support or clarification.
Thanks Sandro for reporting it! I put all of them into my release issue:
https://github.com/numpy/numpy/issues/396
most of the failures seem to be caused by these two issues:
https://github.com/numpy/numpy/issues/394
https://github.com/numpy/numpy/issues/426
so I am looking into this now.
Ondrej
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Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On Sat, Sep 1, 2012 at 2:19 AM, Sandro Tosi mo...@debian.org wrote: On Fri, Aug 31, 2012 at 8:07 PM, Sandro Tosi mo...@debian.org wrote: On Fri, Aug 31, 2012 at 7:17 PM, Ondřej Čertík ondrej.cer...@gmail.com wrote: If you could create issues at github: https://github.com/numpy/numpy/issues that would be great. If you have time, also with some info about the platform and how to reproduce it. Or at least a link to the build logs. I've reported it here: https://github.com/numpy/numpy/issues/402 I've just spammed the issue tracker with additional issues, reporting all the test suite failures on Debian architectures; issues are 406 - 414 . Don't hesitate to contact me if you need any support or clarification. Thanks Sandro for reporting it! I put all of them into my release issue: https://github.com/numpy/numpy/issues/396 most of the failures seem to be caused by these two issues: https://github.com/numpy/numpy/issues/394 https://github.com/numpy/numpy/issues/426 so I am looking into this now. Ondrej ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On Fri, Aug 31, 2012 at 8:07 PM, Sandro Tosi mo...@debian.org wrote: On Fri, Aug 31, 2012 at 7:17 PM, Ondřej Čertík ondrej.cer...@gmail.com wrote: If you could create issues at github: https://github.com/numpy/numpy/issues that would be great. If you have time, also with some info about the platform and how to reproduce it. Or at least a link to the build logs. I've reported it here: https://github.com/numpy/numpy/issues/402 I've just spammed the issue tracker with additional issues, reporting all the test suite failures on Debian architectures; issues are 406 - 414 . Don't hesitate to contact me if you need any support or clarification. Cheers, -- Sandro Tosi (aka morph, morpheus, matrixhasu) My website: http://matrixhasu.altervista.org/ Me at Debian: http://wiki.debian.org/SandroTosi ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
Hello, On Tue, Aug 21, 2012 at 6:24 PM, Ondřej Čertík ondrej.cer...@gmail.com wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. I've just uploaded it to Debian experimental, so we can give it a run while in freeze. Some of the buildds are already building[1] the package, so we should get results asap (either failures or successes). [1] https://buildd.debian.org/status/package.php?p=python-numpysuite=experimental If tests fail, it won't stop the build, and indeed I got at least 2 errors (actually 1 error and 1 crash), when running tests for python 2.7 and 3.2 with debug enabled: 2.7 dbg == ERROR: test_power_zero (test_umath.TestPower) -- Traceback (most recent call last): File /tmp/buildd/python-numpy-1.7.0~b1/debian/tmp/usr/lib/python2.7/dist-packages/numpy/core/tests/test_umath.py, line 139, in test_power_zero assert_complex_equal(np.power(zero, 0+1j), cnan) RuntimeWarning: invalid value encountered in power -- 3.2 dbg python3.2-dbg: numpy/core/src/multiarray/common.c:161: PyArray_DTypeFromObjectHelper: Assertion `((PyObject*)(temp))-ob_type))-tp_flags ((1L27))) != 0)' failed. Aborted I'm reporting them here since you asked so, dunno if you want an issue on github to track them. I'll look at the buildds logs and report additional failures if they come up. Cheers, -- Sandro Tosi (aka morph, morpheus, matrixhasu) My website: http://matrixhasu.altervista.org/ Me at Debian: http://wiki.debian.org/SandroTosi ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
Hi Sandro, On Fri, Aug 31, 2012 at 6:18 AM, Sandro Tosi mo...@debian.org wrote: Hello, On Tue, Aug 21, 2012 at 6:24 PM, Ondřej Čertík ondrej.cer...@gmail.com wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. I've just uploaded it to Debian experimental, so we can give it a run while in freeze. Some of the buildds are already building[1] the package, so we should get results asap (either failures or successes). This is awesome, thanks you so much for doing this. This should reveal some bugs. [1] https://buildd.debian.org/status/package.php?p=python-numpysuite=experimental If tests fail, it won't stop the build, and indeed I got at least 2 errors (actually 1 error and 1 crash), when running tests for python 2.7 and 3.2 with debug enabled: 2.7 dbg == ERROR: test_power_zero (test_umath.TestPower) -- Traceback (most recent call last): File /tmp/buildd/python-numpy-1.7.0~b1/debian/tmp/usr/lib/python2.7/dist-packages/numpy/core/tests/test_umath.py, line 139, in test_power_zero assert_complex_equal(np.power(zero, 0+1j), cnan) RuntimeWarning: invalid value encountered in power -- 3.2 dbg python3.2-dbg: numpy/core/src/multiarray/common.c:161: PyArray_DTypeFromObjectHelper: Assertion `((PyObject*)(temp))-ob_type))-tp_flags ((1L27))) != 0)' failed. Aborted I'm reporting them here since you asked so, dunno if you want an issue on github to track them. I'll look at the buildds logs and report additional failures if they come up. If you could create issues at github: https://github.com/numpy/numpy/issues that would be great. If you have time, also with some info about the platform and how to reproduce it. Or at least a link to the build logs. I'll add it to the release TODO and try to fix it. Ondrej ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
Ond??ej ??ert??k ondrej.cer...@gmail.com wrote: python3.2-dbg: numpy/core/src/multiarray/common.c:161: PyArray_DTypeFromObjectHelper: Assertion `((PyObject*)(temp))-ob_type))-tp_flags ((1L27))) != 0)' If you could create issues at github: https://github.com/numpy/numpy/issues that would be great. If you have time, also with some info about the platform and how to reproduce it. Or at least a link to the build logs. For the second one there's an issue here: http://projects.scipy.org/numpy/ticket/2193 Stefan Krah ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On Fri, Aug 31, 2012 at 7:17 PM, Ondřej Čertík ondrej.cer...@gmail.com wrote: If you could create issues at github: https://github.com/numpy/numpy/issues that would be great. If you have time, also with some info about the platform and how to reproduce it. Or at least a link to the build logs. I've reported it here: https://github.com/numpy/numpy/issues/402 Cheers, -- Sandro Tosi (aka morph, morpheus, matrixhasu) My website: http://matrixhasu.altervista.org/ Me at Debian: http://wiki.debian.org/SandroTosi ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On Tue, Aug 21, 2012 at 12:24 PM, Ondřej Čertík ondrej.cer...@gmail.comwrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Sources and binary installers can be found at https://sourceforge.net/projects/numpy/files/NumPy/1.7.0b1/ Please test this release and report any issues on the numpy-discussion mailing list. The following problems are known and we'll work on fixing them before the final release: http://projects.scipy.org/numpy/ticket/2187 http://projects.scipy.org/numpy/ticket/2185 http://projects.scipy.org/numpy/ticket/2066 http://projects.scipy.org/numpy/ticket/1588 http://projects.scipy.org/numpy/ticket/2076 http://projects.scipy.org/numpy/ticket/2101 http://projects.scipy.org/numpy/ticket/2108 http://projects.scipy.org/numpy/ticket/2150 http://projects.scipy.org/numpy/ticket/2189 I would like to thank Ralf for a lot of help with creating binaries and other help for this release. Cheers, Ondrej At http://docs.scipy.org/doc/numpy/contents.html, it looks like the TOC tree is a bit messed up. For example, I see that masked arrays are listed multiple times, and I think some of the sub-entries for masked arrays show up multiple times within an entry for masked arrays. Some of the bullets appear as instead of dots. Don't know what version that page is generated from, but we might want to double-check that 1.7.0's docs don't have the same problem. Cheers! Ben Root ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On Tue, Aug 21, 2012 at 9:59 PM, Christoph Gohlke cgoh...@uci.edu wrote: On 8/21/2012 9:24 AM, Ondřej Čertík wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Sources and binary installers can be found at https://sourceforge.net/projects/numpy/files/NumPy/1.7.0b1/ Please test this release and report any issues on the numpy-discussion mailing list. The following problems are known and we'll work on fixing them before the final release: http://projects.scipy.org/numpy/ticket/2187 http://projects.scipy.org/numpy/ticket/2185 http://projects.scipy.org/numpy/ticket/2066 http://projects.scipy.org/numpy/ticket/1588 http://projects.scipy.org/numpy/ticket/2076 http://projects.scipy.org/numpy/ticket/2101 http://projects.scipy.org/numpy/ticket/2108 http://projects.scipy.org/numpy/ticket/2150 http://projects.scipy.org/numpy/ticket/2189 I would like to thank Ralf for a lot of help with creating binaries and other help for this release. Cheers, Ondrej Hi Ondrej, will numpy 1.7.0 final support Python 3.3? The recent patch in the master branch seems to work well. I tested a win-amd64-py2.7\msvc9\MKL build of the numpy maintenance/1.7.x branch against a number of package binaries from http://www.lfd.uci.edu/~gohlke/pythonlibs/. The test results are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7-numpy-MKL-1.7.0rc1.dev-28ffac7/ . For comparison, the tests against numpy-MKL-1.6.2 are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7/ . Besides some numpy 1.7.x test errors due to RuntimeWarning and DeprecationWarning Flipped the release switch on those in commit ea23de8, errors should be gone now. , there are hundreds of RuntimeWarning (numpy.dtype size changed, may indicate binary incompatibility) when loading Cython extensions. This looks really bad. Last discussion I could find on this topic on the Cython list: http://grokbase.com/t/python/cython-devel/121ygkvfhc/cython-upcoming-issues-with-numpy-deprecated-apis-and-cythons-sizeof-checks At this point I think it would be a good idea to install a warning filter for this on import of numpy and leave it in place. And also in the test runner. Even if Cython would fix it now, that doesn't help for all binaries of existing releases of projects that depend on numpy. Ralf There are additional test failures in scipy, statsmodels, bottleneck, skimage, vigra, and mahotas. I did not check in detail or with existing tickets (http://projects.scipy.org/ is timing out or responding with HTTP 500 status). Other packages test OK against numpy 1.7.x, e.g. PIL, PyGame, matplotlib, Pandas, tables, and numexpr. Hope it helps. Christoph ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On Tue, Aug 21, 2012 at 9:59 PM, Christoph Gohlke cgoh...@uci.edu wrote: On 8/21/2012 9:24 AM, Ondřej Čertík wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Sources and binary installers can be found at https://sourceforge.net/projects/numpy/files/NumPy/1.7.0b1/ Please test this release and report any issues on the numpy-discussion mailing list. The following problems are known and we'll work on fixing them before the final release: http://projects.scipy.org/numpy/ticket/2187 http://projects.scipy.org/numpy/ticket/2185 http://projects.scipy.org/numpy/ticket/2066 http://projects.scipy.org/numpy/ticket/1588 http://projects.scipy.org/numpy/ticket/2076 http://projects.scipy.org/numpy/ticket/2101 http://projects.scipy.org/numpy/ticket/2108 http://projects.scipy.org/numpy/ticket/2150 http://projects.scipy.org/numpy/ticket/2189 I would like to thank Ralf for a lot of help with creating binaries and other help for this release. Cheers, Ondrej Hi Ondrej, will numpy 1.7.0 final support Python 3.3? The recent patch in the master branch seems to work well. I tested a win-amd64-py2.7\msvc9\MKL build of the numpy maintenance/1.7.x branch against a number of package binaries from http://www.lfd.uci.edu/~gohlke/pythonlibs/. The test results are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7-numpy-MKL-1.7.0rc1.dev-28ffac7/ . For comparison, the tests against numpy-MKL-1.6.2 are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7/ . ... There are additional test failures in scipy, statsmodels, bottleneck, skimage, vigra, and mahotas. I did not check in detail or with existing tickets (http://projects.scipy.org/ is timing out or responding with HTTP 500 status). None of the scipy ones are serious or due to changes in numpy as far as I can tell. The one thing to do in numpy is silence this warning: DeprecationWarning: The compiler package is deprecated and removed in Python 3.x. Thanks for all those tests Christoph, extremely useful! Ralf ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On Tue, Aug 21, 2012 at 1:59 PM, Christoph Gohlke cgoh...@uci.edu wrote: On 8/21/2012 9:24 AM, Ondřej Čertík wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Sources and binary installers can be found at https://sourceforge.net/projects/numpy/files/NumPy/1.7.0b1/ Please test this release and report any issues on the numpy-discussion mailing list. The following problems are known and we'll work on fixing them before the final release: http://projects.scipy.org/numpy/ticket/2187 http://projects.scipy.org/numpy/ticket/2185 http://projects.scipy.org/numpy/ticket/2066 http://projects.scipy.org/numpy/ticket/1588 http://projects.scipy.org/numpy/ticket/2076 http://projects.scipy.org/numpy/ticket/2101 http://projects.scipy.org/numpy/ticket/2108 http://projects.scipy.org/numpy/ticket/2150 http://projects.scipy.org/numpy/ticket/2189 I would like to thank Ralf for a lot of help with creating binaries and other help for this release. Cheers, Ondrej Hi Ondrej, will numpy 1.7.0 final support Python 3.3? The recent patch in the master branch seems to work well. I tested a win-amd64-py2.7\msvc9\MKL build of the numpy maintenance/1.7.x branch against a number of package binaries from http://www.lfd.uci.edu/~gohlke/pythonlibs/. The test results are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7-numpy-MKL-1.7.0rc1.dev-28ffac7/ . What version of Numpy were the test packages compiled against? For comparison, the tests against numpy-MKL-1.6.2 are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7/ . Besides some numpy 1.7.x test errors due to RuntimeWarning and DeprecationWarning, there are hundreds of RuntimeWarning (numpy.dtype size changed, may indicate binary incompatibility) when loading Cython extensions. There are additional test failures in scipy, statsmodels, bottleneck, skimage, vigra, and mahotas. I did not check in detail or with existing tickets (http://projects.scipy.org/ is timing out or responding with HTTP 500 status). Other packages test OK against numpy 1.7.x, e.g. PIL, PyGame, matplotlib, Pandas, tables, and numexpr. Chuck ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On 8/22/2012 6:26 AM, Charles R Harris wrote: On Tue, Aug 21, 2012 at 1:59 PM, Christoph Gohlke cgoh...@uci.edu mailto:cgoh...@uci.edu wrote: On 8/21/2012 9:24 AM, Ondřej Čertík wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Sources and binary installers can be found at https://sourceforge.net/projects/numpy/files/NumPy/1.7.0b1/ Please test this release and report any issues on the numpy-discussion mailing list. The following problems are known and we'll work on fixing them before the final release: http://projects.scipy.org/numpy/ticket/2187 http://projects.scipy.org/numpy/ticket/2185 http://projects.scipy.org/numpy/ticket/2066 http://projects.scipy.org/numpy/ticket/1588 http://projects.scipy.org/numpy/ticket/2076 http://projects.scipy.org/numpy/ticket/2101 http://projects.scipy.org/numpy/ticket/2108 http://projects.scipy.org/numpy/ticket/2150 http://projects.scipy.org/numpy/ticket/2189 I would like to thank Ralf for a lot of help with creating binaries and other help for this release. Cheers, Ondrej Hi Ondrej, will numpy 1.7.0 final support Python 3.3? The recent patch in the master branch seems to work well. I tested a win-amd64-py2.7\msvc9\MKL build of the numpy maintenance/1.7.x branch against a number of package binaries from http://www.lfd.uci.edu/~gohlke/pythonlibs/ http://www.lfd.uci.edu/%7Egohlke/pythonlibs/. The test results are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7-numpy-MKL-1.7.0rc1.dev-28ffac7/ http://www.lfd.uci.edu/%7Egohlke/pythonlibs/tests/20120821-win-amd64-py2.7-numpy-MKL-1.7.0rc1.dev-28ffac7/. What version of Numpy were the test packages compiled against? numpy-MKL-1.6.x Christoph For comparison, the tests against numpy-MKL-1.6.2 are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7/ http://www.lfd.uci.edu/%7Egohlke/pythonlibs/tests/20120821-win-amd64-py2.7/. Besides some numpy 1.7.x test errors due to RuntimeWarning and DeprecationWarning, there are hundreds of RuntimeWarning (numpy.dtype size changed, may indicate binary incompatibility) when loading Cython extensions. There are additional test failures in scipy, statsmodels, bottleneck, skimage, vigra, and mahotas. I did not check in detail or with existing tickets (http://projects.scipy.org/ is timing out or responding with HTTP 500 status). Other packages test OK against numpy 1.7.x, e.g. PIL, PyGame, matplotlib, Pandas, tables, and numexpr. Chuck ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On 08/21/2012 10:24 AM, Ondřej Čertík wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Currently in trying to support python 3.3 in Fedora Rawhide (F19) and Fedora 18 we are doing: # Regenerate Cython c sources # This is needed with numpy-1.6.2.tar.gz with python 3.3 to avoid an exception # with an import call in the generated .c file in the tarball that uses the # old default of -1: # File mtrand.pyx, line 126, in init mtrand (numpy/random/mtrand/mtrand.c:20679) # ValueError: level must be = 0 # due to the changes in import in 3.3 # Regenerating with a newer Cython fixes it: pushd numpy/random/mtrand/ rm -v mtrand.c cython mtrand.pyx popd However with 1.7.0b1 and Cython 0.16 we get: + cython mtrand.pyx Error compiling Cython file: ... PyArray_DIMS(oa) , NPY_DOUBLE) length = PyArray_SIZE(array) array_data = double *PyArray_DATA(array) itera = flatiterPyArray_IterNew(objectoa) for i from 0 = i length: array_data[i] = func(state, (double *(itera.dataptr))[0]) ^ mtrand.pyx:177:41: Python objects cannot be cast to pointers of primitive types Error compiling Cython file: ... cdef npy_intp i cdef broadcast multi if size is None: multi = broadcast PyArray_MultiIterNew(2, void *oa, void *ob) array = ndarray PyArray_SimpleNew(multi.nd, multi.dimensions, NPY_DOUBLE) ^ mtrand.pyx:222:59: Cannot convert Python object to 'npy_intp *' Error compiling Cython file: ... cdef npy_intp i cdef broadcast multi if size is None: multi = broadcast PyArray_MultiIterNew(3, void *oa, void *ob, void *oc) array = ndarray PyArray_SimpleNew(multi.nd, multi.dimensions, NPY_DOUBLE) ^ mtrand.pyx:275:59: Cannot convert Python object to 'npy_intp *' Error compiling Cython file: ... cdef long *on_data cdef broadcast multi if size is None: multi = broadcast PyArray_MultiIterNew(2, void *on, void *op) array = ndarray PyArray_SimpleNew(multi.nd, multi.dimensions, NPY_LONG) ^ mtrand.pyx:341:59: Cannot convert Python object to 'npy_intp *' Error compiling Cython file: ... cdef double *on_data cdef broadcast multi if size is None: multi = broadcast PyArray_MultiIterNew(2, void *on, void *op) array = ndarray PyArray_SimpleNew(multi.nd, multi.dimensions, NPY_LONG) ^ mtrand.pyx:390:59: Cannot convert Python object to 'npy_intp *' Error compiling Cython file: ... cdef npy_intp i cdef broadcast multi if size is None: multi = broadcast PyArray_MultiIterNew(3, void *on, void *om, void *oN) array = ndarray PyArray_SimpleNew(multi.nd, multi.dimensions, NPY_LONG) ^ mtrand.pyx:442:59: Cannot convert Python object to 'npy_intp *' Error compiling Cython file: ... PyArray_DIMS(oa), NPY_LONG) length = PyArray_SIZE(array) array_data = long *PyArray_DATA(array) itera = flatiterPyArray_IterNew(objectoa) for i from 0 = i length: array_data[i] = func(state, (double *(itera.dataptr))[0]) ^ mtrand.pyx:498:41: Python objects cannot be cast to pointers of primitive types Error compiling Cython file: ... flow = PyFloat_AsDouble(low) fhigh = PyFloat_AsDouble(high) if not PyErr_Occurred(): return cont2_array_sc(self.internal_state, rk_uniform, size, flow, fhigh-flow) PyErr_Clear() olow = ndarrayPyArray_FROM_OTF(low, NPY_DOUBLE, NPY_ARRAY_ALIGNED) ^
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On 08/22/2012 09:55 AM, Orion Poplawski wrote: On 08/21/2012 10:24 AM, Ondřej Čertík wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Currently in trying to support python 3.3 in Fedora Rawhide (F19) and Fedora 18 we are doing: # Regenerate Cython c sources # This is needed with numpy-1.6.2.tar.gz with python 3.3 to avoid an exception # with an import call in the generated .c file in the tarball that uses the # old default of -1: # File mtrand.pyx, line 126, in init mtrand (numpy/random/mtrand/mtrand.c:20679) # ValueError: level must be = 0 # due to the changes in import in 3.3 # Regenerating with a newer Cython fixes it: pushd numpy/random/mtrand/ rm -v mtrand.c cython mtrand.pyx popd If I drop the cython generation it builds, but the python 3 test failure I get now is: + /usr/bin/python3 -c 'import pkg_resources, numpy ; numpy.test()' /usr/lib/python3.3/site-packages/nose/core.py:247: ResourceWarning: unclosed file _io.TextIOWrapper name='/usr/lib/python3.3/site-packages/nose/usage.txt' mode='r' encoding='ANSI_X3.4-1968' os.path.dirname(__file__), 'usage.txt'), 'r').read() S! .. ..K..! .. ..K...EKK..K..S.E! .. ./usr/lib64/python3.3/zipfile.py:1513: ResourceWarning: unclosed file _io.BufferedReader name='/tmp/tmpemcede.npz' self.fp = None
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On 08/22/2012 10:26 AM, Orion Poplawski wrote: On 08/22/2012 09:55 AM, Orion Poplawski wrote: On 08/21/2012 10:24 AM, Ondřej Čertík wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Currently in trying to support python 3.3 in Fedora Rawhide (F19) and Fedora 18 we are doing: # Regenerate Cython c sources # This is needed with numpy-1.6.2.tar.gz with python 3.3 to avoid an exception # with an import call in the generated .c file in the tarball that uses the # old default of -1: # File mtrand.pyx, line 126, in init mtrand (numpy/random/mtrand/mtrand.c:20679) # ValueError: level must be = 0 # due to the changes in import in 3.3 # Regenerating with a newer Cython fixes it: pushd numpy/random/mtrand/ rm -v mtrand.c cython mtrand.pyx popd If I drop the cython generation it builds, but the python 3 test failure I get now is: .. ERROR: Ticket #16 -- Traceback (most recent call last): File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/core/tests/test_regression.py, line 41, in test_pickle_transposed b = pickle.load(f) EOFError == ERROR: Failure: ValueError (can't handle version 187 of numpy.ndarray pickle) -- Traceback (most recent call last): File /usr/lib/python3.3/site-packages/nose/failure.py, line 37, in runTest raise self.exc_class(self.exc_val).with_traceback(self.tb) File /usr/lib/python3.3/site-packages/nose/loader.py, line 232, in generate for test in g(): File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/lib/tests/test_format.py, line 429, in test_roundtrip arr2 = roundtrip(arr) File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/lib/tests/test_format.py, line 420, in roundtrip arr2 = format.read_array(f2) File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/lib/format.py, line 449, in read_array array = pickle.load(fp) ValueError: can't handle version 187 of numpy.ndarray pickle I should note that I'm taking numpy/core/src/multiarray/scalarapi.c and numpy/core/src/multiarray/scalartypes.c.src from git master, which I thought had the fix for this. -- Orion Poplawski Technical Manager 303-415-9701 x222 NWRA, Boulder Office FAX: 303-415-9702 3380 Mitchell Lane or...@nwra.com Boulder, CO 80301 http://www.nwra.com ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
Le mercredi 22 août 2012 à 10:59 -0600, Orion Poplawski a écrit : On 08/22/2012 10:26 AM, Orion Poplawski wrote: On 08/22/2012 09:55 AM, Orion Poplawski wrote: On 08/21/2012 10:24 AM, Ondřej Čertík wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Currently in trying to support python 3.3 in Fedora Rawhide (F19) and Fedora 18 we are doing: # Regenerate Cython c sources # This is needed with numpy-1.6.2.tar.gz with python 3.3 to avoid an exception # with an import call in the generated .c file in the tarball that uses the # old default of -1: # File mtrand.pyx, line 126, in init mtrand (numpy/random/mtrand/mtrand.c:20679) # ValueError: level must be = 0 # due to the changes in import in 3.3 # Regenerating with a newer Cython fixes it: pushd numpy/random/mtrand/ rm -v mtrand.c cython mtrand.pyx popd If I drop the cython generation it builds, but the python 3 test failure I get now is: .. ERROR: Ticket #16 -- Traceback (most recent call last): File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/core/tests/test_regression.py, line 41, in test_pickle_transposed b = pickle.load(f) EOFError == ERROR: Failure: ValueError (can't handle version 187 of numpy.ndarray pickle) -- Traceback (most recent call last): File /usr/lib/python3.3/site-packages/nose/failure.py, line 37, in runTest raise self.exc_class(self.exc_val).with_traceback(self.tb) File /usr/lib/python3.3/site-packages/nose/loader.py, line 232, in generate for test in g(): File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/lib/tests/test_format.py, line 429, in test_roundtrip arr2 = roundtrip(arr) File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/lib/tests/test_format.py, line 420, in roundtrip arr2 = format.read_array(f2) File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/lib/format.py, line 449, in read_array array = pickle.load(fp) ValueError: can't handle version 187 of numpy.ndarray pickle I should note that I'm taking numpy/core/src/multiarray/scalarapi.c and numpy/core/src/multiarray/scalartypes.c.src from git master, which I thought had the fix for this. Note that the fix is actually in numpy/core/src/multiarray/methods.c, see https://github.com/numpy/numpy/pull/371/ ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On 08/22/2012 12:36 PM, Ronan Lamy wrote: Le mercredi 22 août 2012 à 10:59 -0600, Orion Poplawski a écrit : If I drop the cython generation it builds, but the python 3 test failure I get now is: .. ERROR: Ticket #16 -- Traceback (most recent call last): File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/core/tests/test_regression.py, line 41, in test_pickle_transposed b = pickle.load(f) EOFError == ERROR: Failure: ValueError (can't handle version 187 of numpy.ndarray pickle) -- Traceback (most recent call last): File /usr/lib/python3.3/site-packages/nose/failure.py, line 37, in runTest raise self.exc_class(self.exc_val).with_traceback(self.tb) File /usr/lib/python3.3/site-packages/nose/loader.py, line 232, in generate for test in g(): File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/lib/tests/test_format.py, line 429, in test_roundtrip arr2 = roundtrip(arr) File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/lib/tests/test_format.py, line 420, in roundtrip arr2 = format.read_array(f2) File /builddir/build/BUILDROOT/numpy-1.7.0-0.2.b1.fc19.x86_64/usr/lib64/python3.3/site-packages/numpy/lib/format.py, line 449, in read_array array = pickle.load(fp) ValueError: can't handle version 187 of numpy.ndarray pickle I should note that I'm taking numpy/core/src/multiarray/scalarapi.c and numpy/core/src/multiarray/scalartypes.c.src from git master, which I thought had the fix for this. Note that the fix is actually in numpy/core/src/multiarray/methods.c, see https://github.com/numpy/numpy/pull/371/ Thanks! -- Orion Poplawski Technical Manager 303-415-9701 x222 NWRA/CoRA DivisionFAX: 303-415-9702 3380 Mitchell Lane or...@cora.nwra.com Boulder, CO 80301 http://www.cora.nwra.com ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On 8/21/2012 9:24 AM, Ondřej Čertík wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Sources and binary installers can be found at https://sourceforge.net/projects/numpy/files/NumPy/1.7.0b1/ Please test this release and report any issues on the numpy-discussion mailing list. The following problems are known and we'll work on fixing them before the final release: http://projects.scipy.org/numpy/ticket/2187 http://projects.scipy.org/numpy/ticket/2185 http://projects.scipy.org/numpy/ticket/2066 http://projects.scipy.org/numpy/ticket/1588 http://projects.scipy.org/numpy/ticket/2076 http://projects.scipy.org/numpy/ticket/2101 http://projects.scipy.org/numpy/ticket/2108 http://projects.scipy.org/numpy/ticket/2150 http://projects.scipy.org/numpy/ticket/2189 I would like to thank Ralf for a lot of help with creating binaries and other help for this release. Cheers, Ondrej Hi Ondrej, will numpy 1.7.0 final support Python 3.3? The recent patch in the master branch seems to work well. I tested a win-amd64-py2.7\msvc9\MKL build of the numpy maintenance/1.7.x branch against a number of package binaries from http://www.lfd.uci.edu/~gohlke/pythonlibs/. The test results are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7-numpy-MKL-1.7.0rc1.dev-28ffac7/. For comparison, the tests against numpy-MKL-1.6.2 are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7/. Besides some numpy 1.7.x test errors due to RuntimeWarning and DeprecationWarning, there are hundreds of RuntimeWarning (numpy.dtype size changed, may indicate binary incompatibility) when loading Cython extensions. There are additional test failures in scipy, statsmodels, bottleneck, skimage, vigra, and mahotas. I did not check in detail or with existing tickets (http://projects.scipy.org/ is timing out or responding with HTTP 500 status). Other packages test OK against numpy 1.7.x, e.g. PIL, PyGame, matplotlib, Pandas, tables, and numexpr. Hope it helps. Christoph ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On Tue, Aug 21, 2012 at 3:59 PM, Christoph Gohlke cgoh...@uci.edu wrote: On 8/21/2012 9:24 AM, Ondřej Čertík wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Sources and binary installers can be found at https://sourceforge.net/projects/numpy/files/NumPy/1.7.0b1/ Please test this release and report any issues on the numpy-discussion mailing list. The following problems are known and we'll work on fixing them before the final release: http://projects.scipy.org/numpy/ticket/2187 http://projects.scipy.org/numpy/ticket/2185 http://projects.scipy.org/numpy/ticket/2066 http://projects.scipy.org/numpy/ticket/1588 http://projects.scipy.org/numpy/ticket/2076 http://projects.scipy.org/numpy/ticket/2101 http://projects.scipy.org/numpy/ticket/2108 http://projects.scipy.org/numpy/ticket/2150 http://projects.scipy.org/numpy/ticket/2189 I would like to thank Ralf for a lot of help with creating binaries and other help for this release. Cheers, Ondrej Hi Ondrej, will numpy 1.7.0 final support Python 3.3? The recent patch in the master branch seems to work well. I tested a win-amd64-py2.7\msvc9\MKL build of the numpy maintenance/1.7.x branch against a number of package binaries from http://www.lfd.uci.edu/~gohlke/pythonlibs/. The test results are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7-numpy-MKL-1.7.0rc1.dev-28ffac7/ . For comparison, the tests against numpy-MKL-1.6.2 are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7/ . Besides some numpy 1.7.x test errors due to RuntimeWarning and DeprecationWarning, there are hundreds of RuntimeWarning (numpy.dtype size changed, may indicate binary incompatibility) when loading Cython extensions. There are additional test failures in scipy, statsmodels, bottleneck, skimage, vigra, and mahotas. I did not check in detail or with existing tickets (http://projects.scipy.org/ is timing out or responding with HTTP 500 status). Most (all?) of the statsmodels issues are due to structured / record array view changes discussed in the thread view of recarray issue. I.e., rec_array.view((float, 3)) no longer works, though I thought this was fixed. Other packages test OK against numpy 1.7.x, e.g. PIL, PyGame, matplotlib, Pandas, tables, and numexpr. Hope it helps. Christoph ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
Re: [Numpy-discussion] ANN: NumPy 1.7.0b1 release
On Tue, Aug 21, 2012 at 3:59 PM, Christoph Gohlke cgoh...@uci.edu wrote: On 8/21/2012 9:24 AM, Ondřej Čertík wrote: Hi, I'm pleased to announce the availability of the first beta release of NumPy 1.7.0b1. Sources and binary installers can be found at https://sourceforge.net/projects/numpy/files/NumPy/1.7.0b1/ Please test this release and report any issues on the numpy-discussion mailing list. The following problems are known and we'll work on fixing them before the final release: http://projects.scipy.org/numpy/ticket/2187 http://projects.scipy.org/numpy/ticket/2185 http://projects.scipy.org/numpy/ticket/2066 http://projects.scipy.org/numpy/ticket/1588 http://projects.scipy.org/numpy/ticket/2076 http://projects.scipy.org/numpy/ticket/2101 http://projects.scipy.org/numpy/ticket/2108 http://projects.scipy.org/numpy/ticket/2150 http://projects.scipy.org/numpy/ticket/2189 I would like to thank Ralf for a lot of help with creating binaries and other help for this release. Cheers, Ondrej Hi Ondrej, will numpy 1.7.0 final support Python 3.3? The recent patch in the master branch seems to work well. I tested a win-amd64-py2.7\msvc9\MKL build of the numpy maintenance/1.7.x branch against a number of package binaries from http://www.lfd.uci.edu/~gohlke/pythonlibs/. The test results are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7-numpy-MKL-1.7.0rc1.dev-28ffac7/. For comparison, the tests against numpy-MKL-1.6.2 are at http://www.lfd.uci.edu/~gohlke/pythonlibs/tests/20120821-win-amd64-py2.7/. Besides some numpy 1.7.x test errors due to RuntimeWarning and DeprecationWarning, there are hundreds of RuntimeWarning (numpy.dtype size changed, may indicate binary incompatibility) when loading Cython extensions. There are additional test failures in scipy, statsmodels, bottleneck, skimage, vigra, and mahotas. I did not check in detail or with existing tickets (http://projects.scipy.org/ is timing out or responding with HTTP 500 status). Thanks Christoph, All the statsmodels errors (14) look like http://projects.scipy.org/numpy/ticket/2187 recarray/structured dtype view Josef Other packages test OK against numpy 1.7.x, e.g. PIL, PyGame, matplotlib, Pandas, tables, and numexpr. Hope it helps. Christoph ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion ___ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
