Hello,
It's good, I managed!
The directory /usr/X11R6 was missing. So I check the Internet for a solution
and I found.
This user has the same problem as me,
http://forums.macgeneration.com/unix-linux-and-open-source/fink-x11-et-xfree86-135977.html
(Sorry, it is in french.)
The problem is in
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On 10/23/11 12:27 PM, Jerome Eberhardt wrote:
Hello,
It's good, I managed! The directory /usr/X11R6 was missing. So I
check the Internet for a solution and I found. This user has the
same problem as me,
If you issue the command
fink list x11-dev
do you get this output?
Information about 3226 packages read in 8 seconds.
p x11-dev [virtual package]
x11-dev is a placeholder package that fink uses to keep track of whether the
Xcode X11 header files
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On 10/22/11 12:34 PM, William G. Scott wrote:
If you issue the command
fink list x11-dev
do you get this output?
Information about 3226 packages read in 8 seconds. p x11-dev
[virtual package]
x11-dev is a placeholder package that fink
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On 10/22/11 1:13 PM, Jerome Eberhardt wrote:
Hello,
Sorry for the inconvenience I didn't except you to answer my email,
especially as fast! I used your package
http://psbmini.ucsc.edu/~wgscott/downloads/fink_for_10.7_64bit_base_install_sw.tgz
I get this ... : /
checking for library libX11.6.dylib... missing
- checking for Growl... found, Growl
- checking for Growl version... 1.2.2-1
Package: 64bit-cpu
Status: install ok installed
Should I reinstall X11 completely ?
Le 22 oct. 2011 à 19:35, Alexander Hansen a écrit :
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On 10/22/11 2:18 PM, Jerome Eberhardt wrote:
I get this ... : /
checking for library libX11.6.dylib... missing - checking for
Growl... found, Growl - checking for Growl version... 1.2.2-1
Package: 64bit-cpu Status: install ok installed
On Wed, 12 Jan 2011 08:32:12 0100 (CET), mario.mil...@mi.infm.it wrote:
Hello,
when i try to run pymol i get the same problem on two computers
with mac os 10.4 (powerPc and Intel), both installing old or new versions
of the program:
freeglut (pymol): ERROR: Internal error FBConfig
Hello,
when i try to run pymol i get the same problem on two computers
with mac os 10.4 (powerPc and Intel), both installing old or new versions
of the program:
freeglut (pymol): ERROR: Internal error FBConfig with necessary
capabilities not found in function fgOpenWindow
X Error of failed
On Wed, 06 Oct 2010 09:21:43 -0400, Hanspeter Niederstrasser wrote:
Pymol-py26 and -py27 crash on startup with a bus error. There is no
terminal output besides Bus error and the only output is the crash
log, reproduced below. The system is 10.5/i386/unstable with Apple's
X11.
Pymol does not launch anymore. I got the following error message:
pymol
Traceback (most recent call last):
File /sw/lib/pymol-py25/modules/pymol/__init__.py, line 167, in module
import pymol
File /sw/lib/pymol-py25/modules/pymol/__init__.py, line 396, in module
import _cmd
Guy Lauquin wrote:
Pymol does not launch anymore. I got the following error message:
/pymol
Traceback (most recent call last):
File /sw/lib/pymol-py25/modules/pymol/__init__.py, line 167, in
module
import pymol
File /sw/lib/pymol-py25/modules/pymol/__init__.py, line 396, in
Thanks for your prompt reply:
found just one occurrence of libpng12.0.dylib.
[chamaerops:~] guy% otool -L
/Applications/seq_analysis/staden-macosx-rel-1-4/lib/macosx-binaries/libpng12.0.dylib
/Applications/seq_analysis/staden-macosx-rel-1-4/lib/macosx-binaries/libpng12.0.dylib:
I wouldn't normally think this one would be in your linker search path, unless
it's been set by an environment variable, e.g. DYLD_LIBRARY_PATH. Check your
environment (e.g. with printenv).
On Wednesday 24 October 2007 09:52:22 am Guy Lauquin wrote:
Thanks for your prompt reply:
found just
Apparently, it has been set by an environment variable:
printenv
...
STADENROOT=/Applications/seq_analysis/staden-macosx-rel-1-4
STADENROOT_2002=/Applications/seq_analysis/staden-macosx-rel-1-4
MACHINE=macosx
STADTABL=/Applications/seq_analysis/staden-macosx-rel-1-4/tables
Good question. I think only DYLD_LIBRARY_PATH is causing problems for your
other software, so you could make up a shell script like the following:
#!/bin/sh
export
DYLD_LIBRARY_PATH=/Applications/seq_analysis/staden-macosx-rel-1-4/lib/macosx-binaries
and run it before you run the staden
Alternatively, you could run (syntax for bash)
unset DYLD_LIBRARY_PATH
before running a Fink-installed executable.
On Wednesday 24 October 2007 01:06:06 pm Alexander Hansen wrote:
Good question. I think only DYLD_LIBRARY_PATH is causing problems for your
other software, so you could make up
Package manager version: 0.27.6
Distribution version: 0.8.1.rsync powerpc
OSX 10.4.10 unstable tree
Installation of pymol-py25 or pymol-py24 failed.
The following package will be installed or updated:
pymol-py25
The following 3 additional packages will be installed:
expat numeric-py25
On 9/21/07, Guy Lauquin [EMAIL PROTECTED] wrote:
Package manager version: 0.27.6
Distribution version: 0.8.1.rsync powerpc
OSX 10.4.10 unstable tree
Installation of pymol-py25 or pymol-py24 failed.
The following package will be installed or updated:
pymol-py25
The following 3 additional
On 9/21/07, Guy Lauquin [EMAIL PROTECTED] wrote:
Package manager version: 0.27.6
Distribution version: 0.8.1.rsync powerpc
OSX 10.4.10 unstable tree
Installation of pymol-py25 or pymol-py24 failed.
The following package will be installed or updated:
pymol-py25
The following 3
On 9/21/07, Guy Lauquin [EMAIL PROTECTED] wrote:
On 9/21/07, Guy Lauquin [EMAIL PROTECTED] wrote:
Package manager version: 0.27.6
Distribution version: 0.8.1.rsync powerpc
OSX 10.4.10 unstable tree
Installation of pymol-py25 or pymol-py24 failed.
The following package will be
I cannot run pymol (pymol-py25-0.99-1004) anymore on my system. Not
sure what happened, it used to work fine. Here's what I see in my X-
terminal:
rubytuesday:~ koen$ pymol
X Error of failed request: BadAlloc (insufficient resources for
operation)
Major opcode of failed request: 150
Greetings,
I can't get pymol to work. I deleted /sw, and did a clean install
fink, but pymol still fails to launch. Here is the error, which is
the same one I used to get before I cleared my old /sw folder (which
was created back when I was running Jaguar).
Thanks.
Payam
Traceback (most
On Dec 24, 2005, at 11:31 AM, Ersatz Sophist wrote:
ImportError: Failure linking new module: /sw/lib/pymol-py24/modules/
pymol/_cmd.so: Symbol not found: _XF86VidModeGetViewPort
Do you have these files:
/Developer/SDKs/MacOSX10.4u.sdk/usr/X11R6/include/X11/extensions/
xf86vmode.h
On Dec 24, 2005, at 12:37 PM, Ersatz Sophist wrote:
Both files are are there. However, the 10.3.9sdk folder is also
there. Could it be that pymol was compiled with the 10.3.9sdk files?
Maybe - but those files are also in the 10.3.9 SDK, and both SDKs can
Ersatz Sophist wrote:
The program was working perfectly fine until recently. The errors that I
get during launch are as follows:
OpenGL based graphics front end:
GL_VENDOR: NVIDIA Corporation
GL_RENDERER: NVIDIA GeForce4 MX OpenGL Engine
GL_VERSION: 1.1 NVIDIA-1.3.28
*** malloc[450]:
You can get much more up-to-date versions of both an OS X native and an
OS X - X-windows-based precompiled and self-contained binaries here:
http://pymol.sourceforge.net/
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Hello everyone,
The pymol issue has been resolved, it seems. After installing all Apple
updates yesterday, the package still gave a segmentation fault after
other errors it encountered during launch. I just updated ligpng3 to
1.2.6RC4 (a brand-spanking new package), and pymol launched without a
The program was working perfectly fine until recently. The errors that
I get during launch are as follows:
OpenGL based graphics front end:
GL_VENDOR: NVIDIA Corporation
GL_RENDERER: NVIDIA GeForce4 MX OpenGL Engine
GL_VERSION: 1.1 NVIDIA-1.3.28
*** malloc[450]: error for object
After I sucessfully installed pymol, I get the following error messages:
Traceback (most recent call last):
File /sw/lib/pymol/modules/pymol/__init__.py, line 93, in ?
import pymol
File /sw/lib/pymol/modules/pymol/__init__.py, line 41, in ?
import invocation
File
Hi Yunfeng:
I haven't been able to get fink's pymol to work at all with 10.3, and
it is also rather out of date now. You might want to check out the OSX
native version. cf: http://pymol.sourceforge.net/ I've tried
compiling the v. 93 x-windows/tkinter version from source on OS X but
Title: pymol does not compile
I was unable to compile pymol . I am running Panther 10-3-2
and unstable tree.
In file included
from Block.c:20:
../layer5/main.h:27: error: parse error before '*' token
../layer5/main.h:28: error: parse error before '*' token
../layer5/main.h:28: warning: data
Matt,
I asked on darwin-development about the compile failures when building
pymol 0.93 on current fink 10.3. One of the darwin developers suggested
we try removing -ansi from the CCOPT1 flag in Rules.make. I did that
change and it does indeed eliminate the compilation problems.
Has anyone made any progress towards getting
pymol 0.90, 0.92 or 0.93 to build under Fink 0.6.1
and MacOS X 10.3?
Jack
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Hello FINK community,
I have been unable to compile pymol 0.90-2.
I copied pymol.info and pymol.patch from
/sw/fink/10.2/unstable/main/finkinfo/sci/
to
/sw/fink/10.3/local/main/finkinfo/
and ran
fink install pymol
I was told to sudo gcc_select 3
I reran fink install pymol
Here is the last
Hi,
I would like to install pymol in the 10.2_gcc3.3 tree, but some of the
packages it depends on are not yet available, numeric-py22 and
pmw-py22. Woudl it be possible to move these to the new tree?
thanks,
- Koen.
---
This SF.net email
Hi,
Just updated to pymol-0.90, and now I get the following error:
/sw/bin/python not found. I checked /sw/bin and indeed there is only a
python22, no python. Pymol used to work before. Any ideas what might be
wrong?
thanks,
- Koen.
---
: [EMAIL PROTECTED]
[mailto:[EMAIL PROTECTED] On Behalf Of Koen van der
Drift
Sent: Saturday, July 05, 2003 10:31 PM
To: [EMAIL PROTECTED]
Subject: [Fink-users] pymol/python error
Hi,
Just updated to pymol-0.90, and now I get the following error:
/sw/bin/python not found. I checked /sw/bin and indeed
I've tried PyMOL (molecular modeling software), which now claims to be
accelerated for OpenGL in the new Apple X-windows version, but for me,
rotating protein structures is really slow. I was hoping to get
something approaching free rotation like I get with rasmol. What kind
of performance
[EMAIL PROTECTED] wrote:
Hi folks:
I've started using numeric-atlas python, and pymol has a dependency on
numeric rather than numeric-atlas. I changed it by hand but this
causes self-update to fail.
Could someone please change the dependency of pymol to numeric |
numeric-atlas or better
Howdy,
Is anyone out there getting PyMOL to work well? I compiled and
installed it all, and it sort of works. The PyMOL Viewer window is
drawn as an Aqua window (and shows up as process 'pythonx'), and the
other control window is drawn with sawfish (I'm running XDarwin
rootless). The Aqua
Mike,
Did you try the latest pymol (release 2)? It works well for me in
fullscreen WindowMaker. It now depends on the GLUT libraries, which was not
the case for the first release, so that might be causing your problems.
- Koen.
___
Fink-users
As Koen said Mike, try the new revision in cvs, it fixes all though
problems.
Matt
On Tuesday, March 26, 2002, at 05:54 AM, Koen van der Drift wrote:
Mike,
Did you try the latest pymol (release 2)? It works well for me in
fullscreen WindowMaker. It now depends on the GLUT libraries,
On Monday, March 25, 2002, at 02:43 PM, Koen van der Drift wrote:
At 01:42 PM 3/25/2002 -0800, Michael Coffin wrote:
So I did 'fink selfupdate-cvs' and it worked away for a while. I then
tried 'fink list' and it still listed Pymol 0.78-1. Is there a way to
check if I'm up to date with
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