Unix software for Apple Macintosh general discussion

Sean Lake | 1 Jun 2010 06:44

Picon

scipy problems

Hello all,

I recently did a fink update-all and now scipy is broken. I launch /sw/bin/python2.6 and try to run:

import scipy.stats

and I get the following error:
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/sw/lib/python2.6/site-packages/scipy/stats/__init__.py", line 7, in <module>
    from stats import *
  File "/sw/lib/python2.6/site-packages/scipy/stats/stats.py", line 203, in <module>
    from morestats import find_repeats #is only reference to scipy.stats
  File "/sw/lib/python2.6/site-packages/scipy/stats/morestats.py", line 7, in <module>
    import distributions
  File "/sw/lib/python2.6/site-packages/scipy/stats/distributions.py", line 27, in <module>
    import vonmises_cython
  File "numpy.pxd", line 30, in scipy.stats.vonmises_cython (scipy/stats/vonmises_cython.c:2939)
ValueError: numpy.dtype does not appear to be the correct type object

This is on both my PPC machine and Intel. 
>From the Intel machine: fink --version
Package manager version: 0.29.10
Distribution version: selfupdate-rsync Mon May 31 16:21:50 2010, 10.6, x86_64

The python version info:
Python 2.6.5 (r265:79063, May 13 2010, 02:07:38) 
[GCC 4.2.1 (Apple Inc. build 5659)] on darwin

The scipy and numpy version info:

(Continue reading)

Sean Lake | 1 Jun 2010 06:54

Picon

Failed: phase compiling: gcc44-4.4.4-1000 failed

Hello all,

I'm on a PPC machine this time. Here is the error message:

patch -p1 < /sw/fink/dists/unstable/main/finkinfo/languages/gcc44.patch
patching file libjava/configure.ac
Hunk #1 succeeded at 139 (offset 57 lines).
patching file libjava/configure
Hunk #1 succeeded at 1021 with fuzz 1 (offset 3 lines).
Hunk #2 succeeded at 1975 (offset 123 lines).
/var/tmp/tmp.1.9FN3tj
#!/bin/bash -ev
 set +x
 if [ -e /usr/local/lib/libgmp.a ] || [ -e /usr/local/lib/libgmp.dylib ]; then
    echo "-----WARNING-----WARNING-----WARNING-----"
    echo "You seem to have GMP installed in /usr/local."
    echo "This is known to cause gcc44 to fail to build."
    echo "Please move aside /usr/local and try again."
    echo "-----WARNING-----WARNING-----WARNING-----"
    exit 1
 fi
-----WARNING-----WARNING-----WARNING-----
You seem to have GMP installed in /usr/local.
This is known to cause gcc44 to fail to build.
Please move aside /usr/local and try again.
-----WARNING-----WARNING-----WARNING-----
### execution of /var/tmp/tmp.1.9FN3tj failed, exit code 1

fink version info:

(Continue reading)

Martin Costabel | 1 Jun 2010 08:40

Picon

Re: Failed: phase compiling: gcc44-4.4.4-1000 failed

Sean Lake wrote:
> Hello all,
> 
> I'm on a PPC machine this time. Here is the error message:
> 
> patch -p1 < /sw/fink/dists/unstable/main/finkinfo/languages/gcc44.patch
> patching file libjava/configure.ac
> Hunk #1 succeeded at 139 (offset 57 lines).
> patching file libjava/configure
> Hunk #1 succeeded at 1021 with fuzz 1 (offset 3 lines).
> Hunk #2 succeeded at 1975 (offset 123 lines).
> /var/tmp/tmp.1.9FN3tj
> #!/bin/bash -ev
>  set +x
>  if [ -e /usr/local/lib/libgmp.a ] || [ -e /usr/local/lib/libgmp.dylib ]; then
>     echo "-----WARNING-----WARNING-----WARNING-----"
>     echo "You seem to have GMP installed in /usr/local."
>     echo "This is known to cause gcc44 to fail to build."
>     echo "Please move aside /usr/local and try again."
>     echo "-----WARNING-----WARNING-----WARNING-----"
>     exit 1
>  fi
> -----WARNING-----WARNING-----WARNING-----
> You seem to have GMP installed in /usr/local.
> This is known to cause gcc44 to fail to build.
> Please move aside /usr/local and try again.
> -----WARNING-----WARNING-----WARNING-----
> ### execution of /var/tmp/tmp.1.9FN3tj failed, exit code 1
> 
> fink version info:

(Continue reading)

Andrew M. Rappe | 1 Jun 2010 03:48

Re: problem with display/image-magick

Dear Dan.

Yes.  For me, downgrading imagemagick as you describe instantly
solves the loss of x-window handles.

% fink install imagemagick-6.4.1-1018
% dpkg -l|grep imagemagick
ii  imagemagick    6.4.1-1018     Image manipulation tools
ii  imagemagick1-s 6.4.1-1018     Image manipulation tools
ii  imagemagick2-d 6.5.8.2-4      Image manipulation tools
ii  imagemagick2-s 6.5.8.2-4      Image manipulation tools

This returns "display" to proper behavior.  I can shrink or grow the
image to any extent, and it never loses its X-window decorations.

% fink install imagemagick-6.5.8.2-4
% dpkg -l|grep imagemagick
ii  imagemagick    6.5.8.2-4      Image manipulation tools
ii  imagemagick1-s 6.4.1-1018     Image manipulation tools
ii  imagemagick2-d 6.5.8.2-4      Image manipulation tools
ii  imagemagick2-s 6.5.8.2-4      Image manipulation tools

This brings back the error.
% display image.jpg
(image has proper x-window decorations; can be moved around desktop, etc)
(view half size)
(image still has proper decorations)
(view half size [2nd time])
(image is a bare rectangle.  Image is seen but no x-window borders.
Cannot be moved or etc.)

(Continue reading)

Andrew M. Rappe | 1 Jun 2010 05:18

Re: problem with display/image-magick

Dear Dan,

Yes, downgrading/upgrading imagemagick reversibly fixes/brings back
the error I reported.

% dpkg -l|grep imagemagick
ii  imagemagick    6.5.8.2-4      Image manipulation tools
ii  imagemagick1-s 6.4.1-1018     Image manipulation tools
ii  imagemagick2-d 6.5.8.2-4      Image manipulation tools
ii  imagemagick2-s 6.5.8.2-4      Image manipulation tools

% display image.jpg
(looks fine)
(view half size)
(looks fine)
(view half size)
(loses x window handles; image window cannot be moved etc)

% fink install imagemagick-6.4.1-1018
% dpkg -l|grep imagemagick
ii  imagemagick    6.4.1-1018     Image manipulation tools
ii  imagemagick1-s 6.4.1-1018     Image manipulation tools
ii  imagemagick2-d 6.5.8.2-4      Image manipulation tools
ii  imagemagick2-s 6.5.8.2-4      Image manipulation tools

% display image.jpg
(looks fine no matter how many times viewed half size)

% fink install imagemagick-6.5.8.2-4
(restores erroneous behavior)

(Continue reading)

Martin Costabel | 1 Jun 2010 14:02

Picon

Re: problem with display/image-magick

Andrew M. Rappe wrote:
> Dear Dan,
> 
> Yes, downgrading/upgrading imagemagick reversibly fixes/brings back
> the error I reported.

Did you say what version of X11 you have installed?

--

-- 
Martin

------------------------------------------------------------------------------

Alexander Hansen | 1 Jun 2010 15:28

Picon

Re: scipy problems


On 6/1/10 12:44 AM, Sean Lake wrote:
> Hello all,
> 
> I recently did a fink update-all and now scipy is broken. I launch /sw/bin/python2.6 and try to run:
> 
> import scipy.stats
> 
> and I get the following error:
> Traceback (most recent call last):
>   File "<stdin>", line 1, in <module>
>   File "/sw/lib/python2.6/site-packages/scipy/stats/__init__.py", line 7, in <module>
>     from stats import *
>   File "/sw/lib/python2.6/site-packages/scipy/stats/stats.py", line 203, in <module>
>     from morestats import find_repeats #is only reference to scipy.stats
>   File "/sw/lib/python2.6/site-packages/scipy/stats/morestats.py", line 7, in <module>
>     import distributions
>   File "/sw/lib/python2.6/site-packages/scipy/stats/distributions.py", line 27, in <module>
>     import vonmises_cython
>   File "numpy.pxd", line 30, in scipy.stats.vonmises_cython (scipy/stats/vonmises_cython.c:2939)
> ValueError: numpy.dtype does not appear to be the correct type object
> 
> This is on both my PPC machine and Intel. 
>>From the Intel machine: fink --version
> Package manager version: 0.29.10
> Distribution version: selfupdate-rsync Mon May 31 16:21:50 2010, 10.6, x86_64
> 
> The python version info:
> Python 2.6.5 (r265:79063, May 13 2010, 02:07:38) 
> [GCC 4.2.1 (Apple Inc. build 5659)] on darwin

(Continue reading)

Andrew M. Rappe | 1 Jun 2010 17:20

Re: problem with display/image-magick

Dear Martin,

I have Xquartz 2.5.0 (xorg-server 1.7.6)
Installed from X11-2.5.0.dmg:

% ls -l X11-2.5.0.dmg 
-rw-r--r-- <at>  1 rappe  staff  70851244 Mar 29 20:00 X11-2.5.0.dmg
% md5sum X11-2.5.0.dmg
a7097ef93ee12d2c4ac35ebc72d6dc94  X11-2.5.0.dmg
% 

(By the way, I see the same error and same reversible
upgrade/downgrade giving/removing error on an Intel MacBook and a G4
Mini)

Thanks for looking into this.  
Andrew

On Tue, Jun 01, 2010 at 02:02:40PM +0200 or thereabouts, Martin Costabel wrote:
> Andrew M. Rappe wrote:
> >Dear Dan,
> >
> >Yes, downgrading/upgrading imagemagick reversibly fixes/brings back
> >the error I reported.
> 
> Did you say what version of X11 you have installed?
> 
> -- 
> Martin
>

(Continue reading)

Alexander Hansen | 1 Jun 2010 19:38

Picon

Re: problem with display/image-magick

On 6/1/10 11:20 AM, Andrew M. Rappe wrote:
> Dear Martin,
> 
> I have Xquartz 2.5.0 (xorg-server 1.7.6)
> Installed from X11-2.5.0.dmg:
> 
> % ls -l X11-2.5.0.dmg 
> -rw-r--r-- <at>  1 rappe  staff  70851244 Mar 29 20:00 X11-2.5.0.dmg
> % md5sum X11-2.5.0.dmg
> a7097ef93ee12d2c4ac35ebc72d6dc94  X11-2.5.0.dmg
> % 
> 
> (By the way, I see the same error and same reversible
> upgrade/downgrade giving/removing error on an Intel MacBook and a G4
> Mini)
> 
> Thanks for looking into this.  
> Andrew
> 

I get a different "half size" behavior on 10.5.8/i386 and
10.5.8/powerpc; both machines have Xquartz 2.5 and use quartz-wm as the
window manager. imagemagick is locally built in both cases (rather than
from an unofficial binary distribution), but I'm not sure what vintage
of Xquartz was used.

When I try to view an image at half size, I don't lose my window
decorations, but instead the window flickers like crazy and I can't
close it directly.

(Continue reading)

Sean Lake | 1 Jun 2010 22:53

Picon

Re: scipy problems


On Jun 1, 2010, at 6:28, Alexander Hansen wrote:

> -----BEGIN PGP SIGNED MESSAGE-----
> Hash: SHA1
> 
> On 6/1/10 12:44 AM, Sean Lake wrote:
>> Hello all,
>> 
>> I recently did a fink update-all and now scipy is broken. I launch /sw/bin/python2.6 and try to run:
>> 
>> import scipy.stats
>> 
>> and I get the following error:
>> Traceback (most recent call last):
>>  File "<stdin>", line 1, in <module>
>>  File "/sw/lib/python2.6/site-packages/scipy/stats/__init__.py", line 7, in <module>
>>    from stats import *
>>  File "/sw/lib/python2.6/site-packages/scipy/stats/stats.py", line 203, in <module>
>>    from morestats import find_repeats #is only reference to scipy.stats
>>  File "/sw/lib/python2.6/site-packages/scipy/stats/morestats.py", line 7, in <module>
>>    import distributions
>>  File "/sw/lib/python2.6/site-packages/scipy/stats/distributions.py", line 27, in <module>
>>    import vonmises_cython
>>  File "numpy.pxd", line 30, in scipy.stats.vonmises_cython (scipy/stats/vonmises_cython.c:2939)
>> ValueError: numpy.dtype does not appear to be the correct type object
>> 
>> This is on both my PPC machine and Intel. 
>>> From the Intel machine: fink --version
>> Package manager version: 0.29.10

(Continue reading)

Group

gmane.os.apple.fink.general.

Search Archive

Page

1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 26

Articles in period: 259

June 2010

Language

Change language

Options

Current view: Threads only / Showing only 20 lines / Not hiding cited text.
Change to All messages, whole messages, or hide cited text.

Post a message
NNTP Newsgroup
Classic Gmane web interface
XML

XML

RSS Feed
List Information

About Gmane

Recent entries

Problem Updating date-manip-pm5124 (22 May 2013)
Location of configure or make files (21 May 2013)
selfupdate fails (19 May 2013)
icewm fails (19 May 2013)
icewm fails (16 May 2013)
emacs-carbon fails to build (16 May 2013)
Failed: phase compiling: mercurial-py27-2.6.1-1 (16 May 2013)
mysql advice/version? (16 May 2013)
cant install Failed: can't install package dbus-1.4.18-2 (15 May 2013)
Error in compiling Geomview 1.9.4-1003 in Os X 10.8.3 (14 May 2013)
FINK ERROR REPORT: phase compiling: avrdude-5.10-1 failed (12 May 2013)
FINK ERROR REPORT: phase compiling: avrdude-5.10-1 failed (12 May 2013)
Incorrect number of cores? (11 May 2013)
X11 crashes when starting gedit or other gtk based applications on Mac (11 May 2013)
libopensync1-shlibs-0.39-3 make error (10 May 2013)
libopensync1-shlibs-0.39-3 make error (10 May 2013)
swftools bug (6 May 2013)
ocaml-extlib-1.5.2-1 on 10.8 (6 May 2013)
nurbs-oct363 fails (2 May 2013)
failed: phase compiling: doxygen-1.8.3.1-1 failed (1 May 2013)
failed: phase compiling: doxygen-1.8.3.1-1 failed (30 Apr 2013)

Archives

81	May 2013
206	April 2013
150	March 2013
140	February 2013
203	January 2013
122	December 2012
74	November 2012
151	October 2012
118	September 2012
219	August 2012
162	July 2012
221	June 2012
142	May 2012
270	April 2012
183	March 2012
164	February 2012
181	January 2012
194	December 2011
181	November 2011
270	October 2011
185	September 2011
157	August 2011
193	July 2011
89	June 2011
148	May 2011
193	April 2011
126	March 2011
95	February 2011
95	January 2011
111	December 2010
105	November 2010
149	October 2010
96	September 2010
156	August 2010
153	July 2010
257	June 2010
161	May 2010
175	April 2010
169	March 2010
159	February 2010
127	January 2010
217	December 2009
280	November 2009
216	October 2009
424	September 2009
264	August 2009
131	July 2009
144	June 2009
85	May 2009
170	April 2009
145	March 2009
180	February 2009
195	January 2009
224	December 2008
160	November 2008
256	October 2008
206	September 2008
209	August 2008
321	July 2008
84	June 2008
226	May 2008
232	April 2008
326	March 2008
203	February 2008
325	January 2008
290	December 2007
399	November 2007
188	October 2007
99	September 2007
104	August 2007
102	July 2007
150	June 2007
157	May 2007
76	April 2007
163	March 2007
188	February 2007
195	January 2007
192	December 2006
219	November 2006
187	October 2006
187	September 2006
279	August 2006
246	July 2006
161	June 2006
175	May 2006
217	April 2006
325	March 2006
416	February 2006
307	January 2006
225	December 2005
235	November 2005
231	October 2005
382	September 2005
422	August 2005
411	July 2005
593	June 2005
484	May 2005
275	April 2005
463	March 2005
289	February 2005
265	January 2005
204	December 2004
237	November 2004
292	October 2004
333	September 2004
276	August 2004
337	July 2004
307	June 2004
298	May 2004
413	April 2004
408	March 2004
482	February 2004
459	January 2004
535	December 2003
845	November 2003
547	October 2003
314	September 2003
270	August 2003
485	July 2003
375	June 2003
369	May 2003
656	April 2003
541	March 2003
729	February 2003
974	January 2003
650	December 2002
596	November 2002
688	October 2002
854	September 2002
691	August 2002
512	July 2002
717	June 2002
322	May 2002

Design

Zawodny | Right Menu | Left Menu

Your Own Design

Paste the URL of your CSS below. Download CSS template