Mailman 3 October 2012 - SciPy-User

Scipy stack: standard packages (poll)
by Thomas Kluyver 08 Oct '12

08 Oct '12

Following on from recent discussion here and on the numfocus list, I'm trying to work out the set of packages that should make up a standardised 'scipy stack'. We've determined that Python, numpy, scipy, matplotlib and IPython are to be included. Then there's a list that have got a 'maybe': pandas, statsmodels, sympy, scikits-learn, scikits-image, PyTables, h5py, NetworkX, nose, basemap & netCDF4. My aim is to have a general set of packages that you can do useful work with, and will stand up to the competition (particularly Matlab & R), but without gaining too many subject-specific packages. But I don't know what's generally useful and what's subject specific. Vote at: http://www.doodle.com/ma6rnpnbfc6wivu9 It's set up so you can vote for or against a package, or abstain if you're not sure - I've abstained on most of them myself. Thanks, Thomas

13 34

Problems using scipy.sparse.linalg.eigs
by Michael Dzjaparidze 08 Oct '12

08 Oct '12

I'm having trouble using scipy.sparse.linalg.eigs in that it fails to find any eigenvalues hence raising a "DNAUPD did not find any eigenvalues to sufficient accuracy." error. Even after experimenting with different tol parameter settings. If instead I use scipy.linalg.eig after first calling .todense() on my sparse matrix I do get all the eigenvalues I expect to get back. I suppose I could just do this, but that seems a bit inelegant after all the trouble of working with sparse matrices. I realize this issue is a bit hard to answer if I don't provide a concrete example so quickly, but I just was wondering if anybody has experienced a similar problem perhaps? The eigenvalues which I expect to get back are N/2 complex conjugate pairs, where NxN is the size of my original matrix. Any help or advice is greatly appreciated.

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Re: [SciPy-User] [pystatsmodels] Re: Re: ANN: pandas 0.9.0 released
by Wes McKinney 08 Oct '12

08 Oct '12

On Mon, Oct 8, 2012 at 9:15 AM, Neal Becker <ndbecker2(a)gmail.com> wrote: > Wes McKinney wrote: > >> On Mon, Oct 8, 2012 at 8:50 AM, Andreas Hilboll >> <lists(a)hilboll.de> wrote: >>>> On fedora 17: >>>> >>>> pip install --up --user pandas >>>> ... >>>> Installing collected packages: python-dateutil, pytz, six >>>> Found existing installation: python-dateutil 1.5 >>>> Uninstalling python-dateutil: >>>> Exception: >>>> ... >>>> >>>> So pip wants to remove the system python-dateutil 1.5. >>>> >>>> What's the solution here? Can pandas 0.9 just use the installed dateutil >>>> 1.5? >>> >>> IIRC, dateutil >= 2.0 is for Python3, while Python 2.x requires dateutil 1.5. >>> >>> Cheers, Andreas. >>> >> >> dateutil 2.1 supports >= 2.6 and 3.x using six. Here are the arguments >> being passed to pip: >> >> setuptools_kwargs = { >> 'install_requires': ['python-dateutil', >> 'pytz', >> 'numpy >= 1.6'], >> 'zip_safe' : False, >> } >> >> Maybe passing --no-deps to pip is the way to go. Packaging misery >> >> - Wes > > So to confirm, pandas will work OK with dateutil 1.5? > Yes

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Re: [SciPy-User] [pystatsmodels] Re: ANN: pandas 0.9.0 released
by Andreas Hilboll 08 Oct '12

08 Oct '12

> On fedora 17: > > pip install --up --user pandas > ... > Installing collected packages: python-dateutil, pytz, six > Found existing installation: python-dateutil 1.5 > Uninstalling python-dateutil: > Exception: > ... > > So pip wants to remove the system python-dateutil 1.5. > > What's the solution here? Can pandas 0.9 just use the installed dateutil > 1.5? IIRC, dateutil >= 2.0 is for Python3, while Python 2.x requires dateutil 1.5. Cheers, Andreas.

2 1

ANN: pandas 0.9.0 released
by Wes McKinney 08 Oct '12

08 Oct '12

hi all, I'm pleased to announce the 0.9.0 release of pandas. This is a major release with several feature improvements, a very large number of bug- and corner case-fixes, and minor, but necessary API changes. Many issues that were preventing pandas 0.7.x users from upgrading to 0.8.x (due to numpy.datetime64 problems) have been fixed. I recommend that all users upgrade to it as soon as feasible. Thanks to all who contributed to this release, especially Chang She, Wouter Overmeire, and y-p. As always source archives and Windows installers can be found on PyPI. What's new: http://pandas.pydata.org/pandas-docs/stable/whatsnew.html $ git log v0.8.1..v0.9.0 --pretty=format:%aN | sort | uniq -c | sort -rn 178 Wes McKinney 77 Chang She 22 y-p 17 Wouter Overmeire 7 Skipper Seabold 5 tshauck 5 Spencer Lyon 5 Martin Blais 4 Paul Ivanov 4 Lars Buitinck 4 Dan Miller 2 John-Colvin 2 Christopher Whelan 1 Yaroslav Halchenko 1 Taavi Burns 1 Øystein S. Haaland 1 MinRK 1 Mark O'Leary 1 lenolib 1 Joshua Leahy 1 Johnny 1 Doug Coleman 1 Dieter Vandenbussche 1 Daniel Shapiro Happy data hacking! - Wes What is it ========== pandas is a Python package providing fast, flexible, and expressive data structures designed to make working with relational, time series, or any other kind of labeled data both easy and intuitive. It aims to be the fundamental high-level building block for doing practical, real world data analysis in Python. Links ===== Release Notes: http://github.com/pydata/pandas/blob/master/RELEASE.rst Documentation: http://pandas.pydata.org Installers: http://pypi.python.org/pypi/pandas Code Repository: http://github.com/pydata/pandas Mailing List: http://groups.google.com/group/pydata

3 2

csr_matrix rows remove
by Pavel Lurye 07 Oct '12

07 Oct '12

Hi, I'm using scipy csr_matrix and I'm trying to figure out what is the simple and fast way to remove a row from such matrix? For example, I have a tuple of rows, that should be deleted. The only way I see, is to generate a tuple of matrix parts and vstack it. Please, help me out with this. Thanks in advance, Pavel.

3 2

Fitting to a combination of gaussian functions
by Jose Guzman 06 Oct '12

06 Oct '12

Dear colleagues, I wanted to fit some data to a function that contains the combination of 2 gaussian functions of different widths (the same height and position of the peak). For that I created the following function: def gaussian_func(x, a, b, c1, c2): """ a is the height of curve peak b is the position of the center of the peak c1 is the width for negative values of x c2 is the width for positive values of x """ if x>0: val = a*exp( -( (x-b)**2/(2*c2**2) ) ) else: val = a*exp( -( (x-b)**2/(2*c1**2) ) ) return(val) But when I try to fit the data with scipy.optimize.curve_fit i get the following error: "The truth value of an array with more than one element is ambiguous. Use a.any() or a.all()" For example: xdata = np.array([21, 36, 53, 67,60,66, 30,36, 19]) ydata = np.array([-100. -50. -20. -10. 0. 10. 20. 50. 100.]) curve_fit(gaussian_func, xdata, ydata) I guess this is because the function is vectorized. Is there any way to avoid this behaviour or any other way to fit these data ? Thanks in advance Jose -- Jose Guzman http://www.ist.ac.at/~jguzman/

2 1

cobyla return status flag
by The Helmbolds 05 Oct '12

05 Oct '12

I notice that when using 'minimize' with method = 'COBYLA' on my system, the Result object's status flag reads "1.0", although the documentation describes this as an 'int' type. Line 238 in the cobyla.py routine reads: status=info[0] Perhaps info is getting a float from the wrapped Fortran routine. Maybe a simple and unobtrusive fix would be to change that line to: status=int(info[0]) #?? Bob H

3 2

Eclipse IDE for Java Developers with PyDev - updating scipy
by Harshad Surdi 05 Oct '12

05 Oct '12

Hi, I am using Eclipse IDE for Java Developers with PyDev on Ubuntu 12.04 and I am quite new to Ubuntu and Eclipse. Can you guide me as to hos to update scipy version in PyDev in Eclipse? -- Best Regards, Harshad Surdi

2 1

scipy installation error: fblas.so: undefined symbol: s_stop
by Ed Sexton 05 Oct '12

05 Oct '12

Dear Scipy Users- I am trying to compile from source scipy (with lapack and blas) and numpy - but when executing scipy.test() I receive "undefined symbol: s_stop" errors on fblas.so: Could someone please advise if I have an incompatibility with a compiler or software version? I am stuck using "Red Hat Enterprise Linux Server release 6.3". Once I have this working on one system, my next task is to roll this out to 600 more servers. Your help would be GREATLY appreciated with helping me overcome this error. *ERROR*: Failure: ImportError (/usr/lib64/python2.6/site-packages/scipy/lib/blas/fblas.so: undefined symbol: s_stop) *SOFTWARE VERSIONS*: numpy-1.6.2 scipy-0.11.0 blas lapack-3.4.2 scikit-learn-0.12 *SYSTEM ENVIRONMENT*: # python -c 'from numpy.f2py.diagnose import run; run()' ------ os.name='posix' ------ sys.platform='linux2' ------ sys.version: 2.6.6 (r266:84292, May 1 2012, 13:52:17) [GCC 4.4.6 20110731 (Red Hat 4.4.6-3)] ------ sys.prefix: /usr ------ sys.path=':/usr/lib64/python26.zip:/usr/lib64/python2.6:/usr/lib64/python2.6/plat-linux2:/usr/lib64/python2.6/lib-tk:/usr/lib64/python2.6/lib-old:/usr/lib64/python2.6/lib-dynload:/usr/lib64/python2.6/site-packages:/usr/lib64/python2.6/site-packages/gtk-2.0:/usr/lib/python2.6/site-packages' ------ Found new numpy version '1.6.2' in /usr/lib64/python2.6/site-packages/numpy/__init__.pyc Found f2py2e version '2' in /usr/lib64/python2.6/site-packages/numpy/f2py/f2py2e.pyc Found numpy.distutils version '0.4.0' in '/usr/lib64/python2.6/site-packages/numpy/distutils/__init__.pyc' ------ Importing numpy.distutils.fcompiler ... ok ------ Checking availability of supported Fortran compilers: GnuFCompiler instance properties: archiver = ['/usr/bin/g77', '-cr'] compile_switch = '-c' compiler_f77 = ['/usr/bin/g77', '-g', '-Wall', '-fno-second- underscore', '-fPIC', '-O3', '-funroll-loops'] compiler_f90 = None compiler_fix = None libraries = ['g2c'] library_dirs = [] linker_exe = ['/usr/bin/g77', '-g', '-Wall', '-g', '-Wall'] linker_so = ['/usr/bin/g77', '-g', '-Wall', '-g', '-Wall', '- shared'] object_switch = '-o ' ranlib = ['/usr/bin/g77'] version = LooseVersion ('3.4.6') version_cmd = ['/usr/bin/g77', '--version'] Gnu95FCompiler instance properties: archiver = ['/usr/bin/gfortran', '-cr'] compile_switch = '-c' compiler_f77 = ['/usr/bin/gfortran', '-Wall', '-ffixed-form', '-fno- second-underscore', '-fPIC', '-O3', '-funroll-loops'] compiler_f90 = ['/usr/bin/gfortran', '-Wall', '-fno-second-underscore', '-fPIC', '-O3', '-funroll-loops'] compiler_fix = ['/usr/bin/gfortran', '-Wall', '-ffixed-form', '-fno- second-underscore', '-Wall', '-fno-second-underscore', '- fPIC', '-O3', '-funroll-loops'] libraries = ['gfortran'] library_dirs = [] linker_exe = ['/usr/bin/gfortran', '-Wall', '-Wall'] linker_so = ['/usr/bin/gfortran', '-Wall', '-Wall', '-shared'] object_switch = '-o ' ranlib = ['/usr/bin/gfortran'] version = LooseVersion ('4.4.6') version_cmd = ['/usr/bin/gfortran', '--version'] Fortran compilers found: --fcompiler=gnu GNU Fortran 77 compiler (3.4.6) --fcompiler=gnu95 GNU Fortran 95 compiler (4.4.6) Compilers available for this platform, but not found: --fcompiler=absoft Absoft Corp Fortran Compiler --fcompiler=compaq Compaq Fortran Compiler --fcompiler=g95 G95 Fortran Compiler --fcompiler=intel Intel Fortran Compiler for 32-bit apps --fcompiler=intele Intel Fortran Compiler for Itanium apps --fcompiler=intelem Intel Fortran Compiler for 64-bit apps --fcompiler=lahey Lahey/Fujitsu Fortran 95 Compiler --fcompiler=nag NAGWare Fortran 95 Compiler --fcompiler=pathf95 PathScale Fortran Compiler --fcompiler=pg Portland Group Fortran Compiler --fcompiler=vast Pacific-Sierra Research Fortran 90 Compiler Compilers not available on this platform: --fcompiler=hpux HP Fortran 90 Compiler --fcompiler=ibm IBM XL Fortran Compiler --fcompiler=intelev Intel Visual Fortran Compiler for Itanium apps --fcompiler=intelv Intel Visual Fortran Compiler for 32-bit apps --fcompiler=intelvem Intel Visual Fortran Compiler for 64-bit apps --fcompiler=mips MIPSpro Fortran Compiler --fcompiler=none Fake Fortran compiler --fcompiler=sun Sun or Forte Fortran 95 Compiler For compiler details, run 'config_fc --verbose' setup command. ------ Importing numpy.distutils.cpuinfo ... ok ------ CPU information: CPUInfoBase__get_nbits getNCPUs has_mmx has_sse has_sse2 has_sse3 has_ssse3 is_64bit is_Intel is_XEON is_Xeon is_i686 ------ Sincerely, Ed Sexton / PayPal *ERROR*: python Python 2.6.6 (r266:84292, May 1 2012, 13:52:17) [GCC 4.4.6 20110731 (Red Hat 4.4.6-3)] on linux2 Type "help", "copyright", "credits" or "license" for more information. >>> import scipy >>> scipy.test() Running unit tests for scipy NumPy version 1.6.2 NumPy is installed in /usr/lib64/python2.6/site-packages/numpy SciPy version 0.11.0 SciPy is installed in /usr/lib64/python2.6/site-packages/scipy Python version 2.6.6 (r266:84292, May 1 2012, 13:52:17) [GCC 4.4.6 20110731 (Red Hat 4.4.6-3)] nose version 1.2.1 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====================================================================== ERROR: Failure: ImportError (/usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop) ---------------------------------------------------------------------- Traceback (most recent call last): File "nose/loader.py", line 390, in loadTestsFromName addr.filename, addr.module) File "nose/importer.py", line 39, in importFromPath return self.importFromDir(dir_path, fqname) File "nose/importer.py", line 86, in importFromDir mod = load_module(part_fqname, fh, filename, desc) File "/usr/lib64/python2.6/site-packages/scipy/interpolate/__init__.py", line 154, in <module> from rbf import Rbf File "/usr/lib64/python2.6/site-packages/scipy/interpolate/rbf.py", line 49, in <module> from scipy import linalg File "/usr/lib64/python2.6/site-packages/scipy/linalg/__init__.py", line 132, in <module> from misc import * File "/usr/lib64/python2.6/site-packages/scipy/linalg/misc.py", line 3, in <module> import fblas ImportError: /usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop ====================================================================== ERROR: Failure: ImportError (/usr/lib64/python2.6/site-packages/scipy/lib/blas/fblas.so: undefined symbol: s_stop) ---------------------------------------------------------------------- Traceback (most recent call last): File "nose/loader.py", line 390, in loadTestsFromName addr.filename, addr.module) File "nose/importer.py", line 39, in importFromPath return self.importFromDir(dir_path, fqname) File "nose/importer.py", line 86, in importFromDir mod = load_module(part_fqname, fh, filename, desc) File "/usr/lib64/python2.6/site-packages/scipy/lib/blas/__init__.py", line 86, in <module> import fblas ImportError: /usr/lib64/python2.6/site-packages/scipy/lib/blas/fblas.so: undefined symbol: s_stop ====================================================================== ERROR: Failure: ImportError (/usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop) ---------------------------------------------------------------------- Traceback (most recent call last): File "nose/loader.py", line 390, in loadTestsFromName addr.filename, addr.module) File "nose/importer.py", line 39, in importFromPath return self.importFromDir(dir_path, fqname) File "nose/importer.py", line 86, in importFromDir mod = load_module(part_fqname, fh, filename, desc) File "/usr/lib64/python2.6/site-packages/scipy/linalg/__init__.py", line 132, in <module> from misc import * File "/usr/lib64/python2.6/site-packages/scipy/linalg/misc.py", line 3, in <module> import fblas ImportError: /usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop ====================================================================== ERROR: test_common.test_pade_trivial ---------------------------------------------------------------------- Traceback (most recent call last): File "nose/case.py", line 197, in runTest self.test(*self.arg) File "/usr/lib64/python2.6/site-packages/scipy/misc/tests/test_common.py", line 9, in test_pade_trivial nump, denomp = pade([1.0], 0) File "/usr/lib64/python2.6/site-packages/scipy/misc/common.py", line 371, in pade from scipy import linalg File "/usr/lib64/python2.6/site-packages/scipy/linalg/__init__.py", line 132, in <module> from misc import * File "/usr/lib64/python2.6/site-packages/scipy/linalg/misc.py", line 3, in <module> import fblas ImportError: /usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop ====================================================================== ERROR: test_common.test_pade_4term_exp ---------------------------------------------------------------------- Traceback (most recent call last): File "nose/case.py", line 197, in runTest self.test(*self.arg) File "/usr/lib64/python2.6/site-packages/scipy/misc/tests/test_common.py", line 18, in test_pade_4term_exp nump, denomp = pade(an, 0) File "/usr/lib64/python2.6/site-packages/scipy/misc/common.py", line 371, in pade from scipy import linalg File "/usr/lib64/python2.6/site-packages/scipy/linalg/__init__.py", line 132, in <module> from misc import * File "/usr/lib64/python2.6/site-packages/scipy/linalg/misc.py", line 3, in <module> import fblas ImportError: /usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop ====================================================================== ERROR: Failure: ImportError (/usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop) ---------------------------------------------------------------------- Traceback (most recent call last): File "nose/loader.py", line 390, in loadTestsFromName addr.filename, addr.module) File "nose/importer.py", line 39, in importFromPath return self.importFromDir(dir_path, fqname) File "nose/importer.py", line 86, in importFromDir mod = load_module(part_fqname, fh, filename, desc) File "/usr/lib64/python2.6/site-packages/scipy/optimize/__init__.py", line 146, in <module> from _root import * File "/usr/lib64/python2.6/site-packages/scipy/optimize/_root.py", line 17, in <module> import nonlin File "/usr/lib64/python2.6/site-packages/scipy/optimize/nonlin.py", line 116, in <module> from scipy.linalg import norm, solve, inv, qr, svd, lstsq, LinAlgError File "/usr/lib64/python2.6/site-packages/scipy/linalg/__init__.py", line 132, in <module> from misc import * File "/usr/lib64/python2.6/site-packages/scipy/linalg/misc.py", line 3, in <module> import fblas ImportError: /usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop ====================================================================== ERROR: Failure: ImportError (/usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop) ---------------------------------------------------------------------- Traceback (most recent call last): File "nose/loader.py", line 390, in loadTestsFromName addr.filename, addr.module) File "nose/importer.py", line 39, in importFromPath return self.importFromDir(dir_path, fqname) File "nose/importer.py", line 86, in importFromDir mod = load_module(part_fqname, fh, filename, desc) File "/usr/lib64/python2.6/site-packages/scipy/signal/__init__.py", line 218, in <module> from cont2discrete import * File "/usr/lib64/python2.6/site-packages/scipy/signal/cont2discrete.py", line 9, in <module> from scipy import linalg File "/usr/lib64/python2.6/site-packages/scipy/linalg/__init__.py", line 132, in <module> from misc import * File "/usr/lib64/python2.6/site-packages/scipy/linalg/misc.py", line 3, in <module> import fblas ImportError: /usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop ====================================================================== ERROR: Failure: ImportError (/usr/lib64/python2.6/site-packages/scipy/sparse/linalg/isolve/_iterative.so: undefined symbol: s_stop) ---------------------------------------------------------------------- Traceback (most recent call last): File "nose/loader.py", line 390, in loadTestsFromName addr.filename, addr.module) File "nose/importer.py", line 39, in importFromPath return self.importFromDir(dir_path, fqname) File "nose/importer.py", line 86, in importFromDir mod = load_module(part_fqname, fh, filename, desc) File "/usr/lib64/python2.6/site-packages/scipy/sparse/linalg/__init__.py", line 90, in <module> from isolve import * File "/usr/lib64/python2.6/site-packages/scipy/sparse/linalg/isolve/__init__.py", line 4, in <module> from iterative import * File "/usr/lib64/python2.6/site-packages/scipy/sparse/linalg/isolve/iterative.py", line 5, in <module> import _iterative ImportError: /usr/lib64/python2.6/site-packages/scipy/sparse/linalg/isolve/_iterative.so: undefined symbol: s_stop ====================================================================== ERROR: Failure: ImportError (/usr/lib64/python2.6/site-packages/scipy/sparse/linalg/isolve/_iterative.so: undefined symbol: s_stop) ---------------------------------------------------------------------- Traceback (most recent call last): File "nose/loader.py", line 390, in loadTestsFromName addr.filename, addr.module) File "nose/importer.py", line 39, in importFromPath return self.importFromDir(dir_path, fqname) File "nose/importer.py", line 86, in importFromDir mod = load_module(part_fqname, fh, filename, desc) File "/usr/lib64/python2.6/site-packages/scipy/sparse/tests/test_base.py", line 34, in <module> from scipy.sparse.linalg import splu File "/usr/lib64/python2.6/site-packages/scipy/sparse/linalg/__init__.py", line 90, in <module> from isolve import * File "/usr/lib64/python2.6/site-packages/scipy/sparse/linalg/isolve/__init__.py", line 4, in <module> from iterative import * File "/usr/lib64/python2.6/site-packages/scipy/sparse/linalg/isolve/iterative.py", line 5, in <module> import _iterative ImportError: /usr/lib64/python2.6/site-packages/scipy/sparse/linalg/isolve/_iterative.so: undefined symbol: s_stop ====================================================================== ERROR: Failure: ImportError (/usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop) ---------------------------------------------------------------------- Traceback (most recent call last): File "nose/loader.py", line 390, in loadTestsFromName addr.filename, addr.module) File "nose/importer.py", line 39, in importFromPath return self.importFromDir(dir_path, fqname) File "nose/importer.py", line 86, in importFromDir mod = load_module(part_fqname, fh, filename, desc) File "/usr/lib64/python2.6/site-packages/scipy/stats/__init__.py", line 321, in <module> from stats import * File "/usr/lib64/python2.6/site-packages/scipy/stats/stats.py", line 194, in <module> import scipy.linalg as linalg File "/usr/lib64/python2.6/site-packages/scipy/linalg/__init__.py", line 132, in <module> from misc import * File "/usr/lib64/python2.6/site-packages/scipy/linalg/misc.py", line 3, in <module> import fblas ImportError: /usr/lib64/python2.6/site-packages/scipy/linalg/fblas.so: undefined symbol: s_stop ====================================================================== FAIL: test_ssyev (test_esv.TestEsv) ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python2.6/site-packages/numpy/testing/decorators.py", line 146, in skipper_func return f(*args, **kwargs) File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_esv.py", line 84, in test_ssyev self._test_base('ssyev', 'F') File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_esv.py", line 26, in _test_base assert_array_almost_equal(w, SYEV_REF, decimal=PREC[tp]) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 800, in assert_array_almost_equal header=('Arrays are not almost equal to %d decimals' % decimal)) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 636, in assert_array_compare raise AssertionError(msg) AssertionError: Arrays are not almost equal to 5 decimals (mismatch 100.0%) x: array([-1.1349628 , 2.38857079, 7.74639225], dtype=float32) y: array([-0.66992434, 0.48769389, 9.18223045]) ====================================================================== FAIL: test_ssyevr (test_esv.TestEsv) ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python2.6/site-packages/numpy/testing/decorators.py", line 146, in skipper_func return f(*args, **kwargs) File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_esv.py", line 92, in test_ssyevr self._test_base('ssyevr', 'F') File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_esv.py", line 26, in _test_base assert_array_almost_equal(w, SYEV_REF, decimal=PREC[tp]) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 800, in assert_array_almost_equal header=('Arrays are not almost equal to %d decimals' % decimal)) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 636, in assert_array_compare raise AssertionError(msg) AssertionError: Arrays are not almost equal to 5 decimals (mismatch 100.0%) x: array([-1.13496113, 2.38857222, 7.74639177], dtype=float32) y: array([-0.66992434, 0.48769389, 9.18223045]) ====================================================================== FAIL: test_ssyevr_ranges (test_esv.TestEsv) ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python2.6/site-packages/numpy/testing/decorators.py", line 146, in skipper_func return f(*args, **kwargs) File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_esv.py", line 100, in test_ssyevr_ranges self._test_syevr_ranges('ssyevr', 'F') File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_esv.py", line 76, in _test_syevr_ranges self._test_base_irange(func, irange, lang) File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_esv.py", line 47, in _test_base_irange assert_array_almost_equal(w, SYEV_REF[rslice], decimal=PREC[tp]) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 800, in assert_array_almost_equal header=('Arrays are not almost equal to %d decimals' % decimal)) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 636, in assert_array_compare raise AssertionError(msg) AssertionError: Arrays are not almost equal to 5 decimals (mismatch 100.0%) x: array([-1.13496113, 2.38857222, 7.74639177], dtype=float32) y: array([-0.66992434, 0.48769389, 9.18223045]) ====================================================================== FAIL: test_ssygv_1 (test_gesv.TestSygv) ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python2.6/site-packages/numpy/testing/decorators.py", line 146, in skipper_func return f(*args, **kwargs) File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_gesv.py", line 41, in test_ssygv_1 self._test_base('ssygv', 'F', 1) File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_gesv.py", line 29, in _test_base decimal=PREC[tp]) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 800, in assert_array_almost_equal header=('Arrays are not almost equal to %d decimals' % decimal)) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 636, in assert_array_compare raise AssertionError(msg) AssertionError: Arrays are not almost equal to 5 decimals (mismatch 100.0%) x: array([ 0.98113459, 0.95912313, 1.87169743], dtype=float32) y: array([ -0.00000000e+00, 2.52944849e+17, -5.80304557e+19], dtype=float32) ====================================================================== FAIL: test_ssygv_2 (test_gesv.TestSygv) ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python2.6/site-packages/numpy/testing/decorators.py", line 146, in skipper_func return f(*args, **kwargs) File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_gesv.py", line 45, in test_ssygv_2 self._test_base('ssygv', 'F', 2) File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_gesv.py", line 32, in _test_base decimal=PREC[tp]) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 800, in assert_array_almost_equal header=('Arrays are not almost equal to %d decimals' % decimal)) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 636, in assert_array_compare raise AssertionError(msg) AssertionError: Arrays are not almost equal to 5 decimals (mismatch 100.0%) x: array([ 0.58952832, 2.39465809, 5.379776 ], dtype=float32) y: array([-0.60370338, 1.07345402, -0.36409575], dtype=float32) ====================================================================== FAIL: test_ssygv_3 (test_gesv.TestSygv) ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python2.6/site-packages/numpy/testing/decorators.py", line 146, in skipper_func return f(*args, **kwargs) File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_gesv.py", line 49, in test_ssygv_3 self._test_base('ssygv', 'F', 3) File "/usr/lib64/python2.6/site-packages/scipy/lib/lapack/tests/test_gesv.py", line 35, in _test_base w[i]*v[:,i], decimal=PREC[tp] - 1) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 800, in assert_array_almost_equal header=('Arrays are not almost equal to %d decimals' % decimal)) File "/usr/lib64/python2.6/site-packages/numpy/testing/utils.py", line 636, in assert_array_compare raise AssertionError(msg) AssertionError: Arrays are not almost equal to 4 decimals (mismatch 100.0%) x: array([ 9.9355526 , 8.03703594, 29.26363754], dtype=float32) y: array([ -7.47458363, 10.02687263, -5.13589382], dtype=float32) ---------------------------------------------------------------------- Ran 2334 tests in 27.363s FAILED (KNOWNFAIL=7, SKIP=29, errors=10, failures=6) <nose.result.TextTestResult run=2334 errors=10 failures=6>

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