On 01/02/2024 14:03, Kim Walbrunn wrote:
Dear mailing list,
I am writing about some problems with Coot when trying to run the
Jiggle-fit command.
I have tried to jiggle fit (simple / FT) coordinates into a CryoEM
map, using the Cryo-EM module (Coot 1.1.07) or the curlew add-on
'Morph'
Dear mailing list,
I am writing about some problems with Coot when trying to run the Jiggle-fit
command.
I have tried to jiggle fit (simple / FT) coordinates into a CryoEM map, using
the Cryo-EM module (Coot 1.1.07) or the curlew add-on 'Morph' (Coot 0.9.8).
With both Coot versions, the
Dear Paul,
Same problem as previously shown.
Thanks.
Yours sincerely
HK
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This message was issued
To whom it may concern,
Recently, I have a problem with coot after Ubuntu upgrade from 18.04 to 20.04.
I could not launch the coot as it showed the message below. May I know what is
going wrong with the software?
Thanks for the help.
Best regards
HK
coot-bin:4860): GLib-GObject-WARNING **:
On Wed, 2021-04-21 at 16:48 +0100, DougB wrote:
> Hello.
>
> I'm attempting to run coot on CentOS 7 using
> "coot-Linux-x86_64-scientific-linux-7.6-gtk2-python" binaries
>
> I'm getting the splash screen, but then coot crashes. I appreciate any help!
>
It would be better if Coot could exit
Hello.
I'm attempting to run coot on CentOS 7 using
"coot-Linux-x86_64-scientific-linux-7.6-gtk2-python" binaries
I'm getting the splash screen, but then coot crashes. I appreciate any help!
Here is the output:
./coot
CLIBD_MON not set using COOT_REFMAC_LIB_DIR
(coot-bin:13947):
Hello.
I'm trying to get Coot working on Centos 7. Currently trying to use the
Scientific Linux 7.6 gtk2-python binaries.
At start, I get the splash screen, but then it crashes before the program
window appears. Any help is appreciated!
Here is the output:
./coot
CLIBD_MON not set using
I installed 0.9.5 on RHEL7.9 and it does not work. Just crashes. Enclosed is
the txt file of the output.
kas
Kenneth A. Satyshur, M.S., Ph.D.
Senior Scientist,
College of Ag and Life Sciences: Department of Bacteriology;
School of Medicine and Public Health:
Departments of Biomolecular
On 22/01/2018 07:40, Marko Hyvonen wrote:
Dear Cooters,
I seem not to be able to read in coordinates which has two different residues (=heterogeneity) in a
particular position. The residues have the same residue number, but differ in residue name. They are
market as alternatives A and B
Dear Cooters,
I seem not to be able to read in coordinates which
has two different residues (=heterogeneity)
in a particular position. The residues have
the same residue number, but differ
in residue name. They are market as
On 18/06/14 19:09, Thomas, Leonard M. wrote:
OK this has me puzzled. Coot was working fine until I had to update something
in order to install the latest version of Phenix. I don't remember exactly
what the module was but Phenix needed it.
Now the latest version of Coot crashes when loading
On 19/06/14 11:29, Paul Emsley wrote:
On 18/06/14 19:09, Thomas, Leonard M. wrote:
OK this has me puzzled. Coot was working fine until I had to update
something in order to install the latest version of Phenix. I don't
remember exactly what the module was but Phenix needed it.
Now the
On Jun 19, 2014, at 9:33 AM, William G. Scott wgsc...@ucsc.edu wrote:
If the user has set $DYLD_LIBRARY_PATH (perhaps via ccp4), it is possible
this gets over-ridden.
I can reproducibly mess coot up with this:
export DYLD_LIBRARY_PATH=/Applications/ccp4-6.4.0/lib
and un-mess it up with
Here is what the path currently is with out modification. Nothing about CCP4.
DYLD_LIBRARY_PATH=/usr/local/xia2-0.3.1.0/xia2-0.3.1.0//binaries/mac_386:/usr/local/xia2-0.3.1.0/xia2-0.3.1.0//binaries/mac_386:/usr/local/DTREK99/lib
Len
From: Mailing list
Reducing the sampling rate did it. Not sure how it got set that high.
Len
From: Mailing list for users of COOT Crystallographic Software
[COOT@JISCMAIL.AC.UK] on behalf of Huw Jenkins [h.t.jenk...@me.com]
Sent: Thursday, June 19, 2014 12:41 PM
To:
OK this has me puzzled. Coot was working fine until I had to update something
in order to install the latest version of Phenix. I don't remember exactly
what the module was but Phenix needed it.
Now the latest version of Coot crashes when loading an mtz file with the
following error
INFO::
On Wed, Jun 18, 2014 at 11:09 AM, Thomas, Leonard M. lmtho...@ou.edu
wrote:
OK this has me puzzled. Coot was working fine until I had to update
something in order to install the latest version of Phenix. I don't
remember exactly what the module was but Phenix needed it.
Probably the
Yep that was what got updated. Now why does it screw up coot? Anyone? Anyone?
Bueller?
Len
From: Nat Echols [nathaniel.ech...@gmail.com]
Sent: Wednesday, June 18, 2014 1:14 PM
To: Thomas, Leonard M.
Cc: COOT@jiscmail.ac.uk
Subject: Re: coot crash when loading
Hmm - do I like updates?
Here is the message from a Fedora 10 based machine..
It was working yesterday evening..
Eleanor
[c...@roo hypFdemo]$ coot-latest
COOT_PREFIX is /y/programs/xtal/coot/coot-Linux-i386-fedora-8-gtk2-python
Hi,
I updated the Coot pre-release 0.6-pre-1-revision-1834-10 using fink. When I
try to run Coot, I am getting the following error. I am using OSX 10.5.6
sssraj% coot
dyld: Library not loaded: /sw/lib/python2.6/config/libpython2.6.dylib
Referenced from: /sw/bin//coot
Reason: image not
I get the same message after my fink update to that version of coot.
I'm also using OSX10.5.6 on a MacIntel.
Anyone find a fix yet?
Jon
On Feb 5, 2009, at 12:11 PM, S. Shanmuga Sundara Raj wrote:
Hi,
I updated the Coot pre-release 0.6-pre-1-revision-1834-10 using
fink. When I try to
Sorry.
Basically, coot built with python2.6 instead of python2.5. I'll try
to fix it the right way, but this one will work if you install fink's
python26 and python packages , and then pygtk2-gtk-py26
The catch is there is no pygtk2-gtk-py26 in fink yet (they claim it
doesn't work, but
I am experiencing a strange Coot crash issue on
some of my Linux workstations. Coot 0.5.2 or 0.6-pre1 crashes with an
identical failure mode with the following Coot output (last few lines):
[...]
load "tips.scm"
load "americanisms.scm"
load "group-settings.scm"
(set-display-lists-for-maps 0)
Roger Rowlett wrote:
I am experiencing a strange Coot crash issue on some of my Linux
workstations. Coot 0.5.2 or 0.6-pre1 crashes with an identical failure
mode with the following Coot output (last few lines):
[...]
load tips.scm
load americanisms.scm
load group-settings.scm
Try moving .coot out of the way, or leaving out any command line
argument and see if it works.
William G. Scott
Contact info:
http://chemistry.ucsc.edu/~wgscott/
On Jul 11, 2008, at 2:56 PM, Jianghai Zhu wrote:
Hi,
I just updated COOT to 0.5-pre-1-1223 using Bill's fink binary under
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