Re: [ccp4bb] Problem with setting up ccp4 gui
I had the same problem. In my case I think it was related to the part
of ccp4 configuration that redefines python path. For some reasons (it
breaks wxPython, at least in Hardy), I had it commented out and then
after starting ccp4i I got these dbccp4i warnings. When I turned python
part of ccp4 configuration script back on I got the same messages as Jan
does - ccp4i window opens and then closes.
What solved the problem for me was to delete the whole .CCP4 folder (it
may be enough just to get rid of unix subfolder). Since it was fresh
Hardy installation on a new machine, I didn't lose anything.
HTH,
Ed.
On Wed, 2009-03-04 at 17:02 +, Stein, ND (Norman) wrote:
Hi Jan
If they exist, could you please send me any of the .log files in the
following directory:
~/.CCP4/
In particular the file dbhandler.log. These should help to fix the
problem.
Thanks
Norman Stein
CCP4
-Original Message-
From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of
Jan Jensen
Sent: 03 March 2009 17:43
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] Problem with setting up ccp4 gui
Hi all,
I have been struggling with installing the new CCP4 package. I run
RedHat Enterprise 4 and have previously used older packages with
success. After I untar and run ./install as root everything seems to
install just fine. When I run ccp4i -c to configure I think something
goes wrong or extensions get misdirected. If I try to run all the
scripts to test, they all seem to execute fine.
I have had luck starting the GUI as root or user but when you get to the
part where projekt directories are setup the GUI stops working and
cannot be restarted (showing the message below)
Error in startup script: wrong # args: should be dbccp4i_open_project
project args
while executing
dbccp4i_open_project
(eval body line 1)
invoked from within
eval dbccp4i_open_project $project $args
(procedure DbLoadFile line 12)
invoked from within
DbLoadFile $project
(procedure DbOpenDatabase line 13)
invoked from within
DbOpenDatabase $project
(procedure DbOpen line 30)
invoked from within
DbOpen -init
(procedure DbInitialise line 19)
invoked from within
DbInitialise
(procedure task line 14)
invoked from within
task
(configure arm line 6)
invoked from within
switch $system(RUN_MODE) \
script {
# Run a script ($CCP4I/scripts/project.script) with parameters from def
file
source [file join $env(CCP4I_...
(file /opt/ccp4/ccp4-6.1.0/ccp4i/bin/ccp4i.tcl line 163)
invoked from within
source [file join $env(CCP4I_TOP) bin ccp4i.tcl]
(file /opt/ccp4/ccp4-6.1.0/ccp4i/bin/ccp4i line 5)
Can anyone help me?
Thanks,
Jan K Jensen, Pl-R, Ph.D.
Post doctoral fellow at University of Illinois at Chicago (UIC)
Laboratory of Peter GW Gettins Department of Biochemistry and Molecular
Genetics MBRB Room 1260 900 S Ashland Chicago Il, 60607
Phone: 312 996 7664 or 773 574 9276 (mobile)
Email: j...@uic.edu
Homepage: http://www.epernicus.com/jkj
-Original Message-
From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of
Nadir T. Mrabet
Sent: Monday, February 16, 2009 12:37 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] PDB protein strucutrues as screen saver
Hi,
You may want to have a look at
http://www.luminorum.com/html/luminorum_ltd___extras.html.
hth
Nadir
--
Pr. Nadir T. Mrabet
Cellular Molecular Biochemistry
INSERM U-724
Nancy University, School of Medicine
9, Avenue de la Foret de Haye, BP 184
54505 Vandoeuvre-les-Nancy Cedex
France
Phone: +33 (0)3.83.68.32.73
Fax: +33 (0)3.83.68.32.79
E-mail: nadir.mra...@medecine.uhp-nancy.fr
Jayashankar wrote:
Dear Scientists,
It may be too much...
But as a biophysics student I would like to appreciate and feel happy
to have pdb structures as my computers screen savers than to have some
funny and fancy stuffs.
And it may help me as a motivator to solve my own structures in
future
I want to ask is there any existing script that grep strucutres one by
one with one line definition of that structure.
S.Jayashankar
Research Student
Institute for Biophysical Chemistry
Hannover Medical School
Germany.
--
Edwin Pozharski, PhD, Assistant Professor
University of Maryland, Baltimore
--
When the Way is forgotten duty and justice appear;
Then knowledge and wisdom are born along with hypocrisy.
When harmonious relationships dissolve then respect and devotion arise;
When a nation falls to chaos then loyalty and patriotism are born.
-- / Lao Tse /
Re: [ccp4bb] Problem with setting up ccp4 gui
Hi Jan
If they exist, could you please send me any of the .log files in the
following directory:
~/.CCP4/
In particular the file dbhandler.log. These should help to fix the
problem.
Thanks
Norman Stein
CCP4
-Original Message-
From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of
Jan Jensen
Sent: 03 March 2009 17:43
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] Problem with setting up ccp4 gui
Hi all,
I have been struggling with installing the new CCP4 package. I run
RedHat Enterprise 4 and have previously used older packages with
success. After I untar and run ./install as root everything seems to
install just fine. When I run ccp4i -c to configure I think something
goes wrong or extensions get misdirected. If I try to run all the
scripts to test, they all seem to execute fine.
I have had luck starting the GUI as root or user but when you get to the
part where projekt directories are setup the GUI stops working and
cannot be restarted (showing the message below)
Error in startup script: wrong # args: should be dbccp4i_open_project
project args
while executing
dbccp4i_open_project
(eval body line 1)
invoked from within
eval dbccp4i_open_project $project $args
(procedure DbLoadFile line 12)
invoked from within
DbLoadFile $project
(procedure DbOpenDatabase line 13)
invoked from within
DbOpenDatabase $project
(procedure DbOpen line 30)
invoked from within
DbOpen -init
(procedure DbInitialise line 19)
invoked from within
DbInitialise
(procedure task line 14)
invoked from within
task
(configure arm line 6)
invoked from within
switch $system(RUN_MODE) \
script {
# Run a script ($CCP4I/scripts/project.script) with parameters from def
file
source [file join $env(CCP4I_...
(file /opt/ccp4/ccp4-6.1.0/ccp4i/bin/ccp4i.tcl line 163)
invoked from within
source [file join $env(CCP4I_TOP) bin ccp4i.tcl]
(file /opt/ccp4/ccp4-6.1.0/ccp4i/bin/ccp4i line 5)
Can anyone help me?
Thanks,
Jan K Jensen, Pl-R, Ph.D.
Post doctoral fellow at University of Illinois at Chicago (UIC)
Laboratory of Peter GW Gettins Department of Biochemistry and Molecular
Genetics MBRB Room 1260 900 S Ashland Chicago Il, 60607
Phone: 312 996 7664 or 773 574 9276 (mobile)
Email: j...@uic.edu
Homepage: http://www.epernicus.com/jkj
-Original Message-
From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of
Nadir T. Mrabet
Sent: Monday, February 16, 2009 12:37 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] PDB protein strucutrues as screen saver
Hi,
You may want to have a look at
http://www.luminorum.com/html/luminorum_ltd___extras.html.
hth
Nadir
--
Pr. Nadir T. Mrabet
Cellular Molecular Biochemistry
INSERM U-724
Nancy University, School of Medicine
9, Avenue de la Foret de Haye, BP 184
54505 Vandoeuvre-les-Nancy Cedex
France
Phone: +33 (0)3.83.68.32.73
Fax: +33 (0)3.83.68.32.79
E-mail: nadir.mra...@medecine.uhp-nancy.fr
Jayashankar wrote:
Dear Scientists,
It may be too much...
But as a biophysics student I would like to appreciate and feel happy
to have pdb structures as my computers screen savers than to have some
funny and fancy stuffs.
And it may help me as a motivator to solve my own structures in
future
I want to ask is there any existing script that grep strucutres one by
one with one line definition of that structure.
S.Jayashankar
Research Student
Institute for Biophysical Chemistry
Hannover Medical School
Germany.
[ccp4bb] Problem with setting up ccp4 gui
Hi all,
I have been struggling with installing the new CCP4 package. I run RedHat
Enterprise 4 and have previously used older packages with success. After I
untar and run ./install as root everything seems to install just fine. When
I run ccp4i -c to configure I think something goes wrong or extensions get
misdirected. If I try to run all the scripts to test, they all seem to
execute fine.
I have had luck starting the GUI as root or user but when you get to the
part where projekt directories are setup the GUI stops working and cannot be
restarted (showing the message below)
Error in startup script: wrong # args: should be dbccp4i_open_project
project args
while executing
dbccp4i_open_project
(eval body line 1)
invoked from within
eval dbccp4i_open_project $project $args
(procedure DbLoadFile line 12)
invoked from within
DbLoadFile $project
(procedure DbOpenDatabase line 13)
invoked from within
DbOpenDatabase $project
(procedure DbOpen line 30)
invoked from within
DbOpen -init
(procedure DbInitialise line 19)
invoked from within
DbInitialise
(procedure task line 14)
invoked from within
task
(configure arm line 6)
invoked from within
switch $system(RUN_MODE) \
script {
# Run a script ($CCP4I/scripts/project.script) with parameters from def file
source [file join $env(CCP4I_...
(file /opt/ccp4/ccp4-6.1.0/ccp4i/bin/ccp4i.tcl line 163)
invoked from within
source [file join $env(CCP4I_TOP) bin ccp4i.tcl]
(file /opt/ccp4/ccp4-6.1.0/ccp4i/bin/ccp4i line 5)
Can anyone help me?
Thanks,
Jan K Jensen, Pl-R, Ph.D.
Post doctoral fellow at University of Illinois at Chicago (UIC)
Laboratory of Peter GW Gettins
Department of Biochemistry and Molecular Genetics
MBRB Room 1260
900 S Ashland
Chicago Il, 60607
Phone: 312 996 7664 or 773 574 9276 (mobile)
Email: j...@uic.edu
Homepage: http://www.epernicus.com/jkj
-Original Message-
From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of Nadir
T. Mrabet
Sent: Monday, February 16, 2009 12:37 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] PDB protein strucutrues as screen saver
Hi,
You may want to have a look at
http://www.luminorum.com/html/luminorum_ltd___extras.html.
hth
Nadir
--
Pr. Nadir T. Mrabet
Cellular Molecular Biochemistry
INSERM U-724
Nancy University, School of Medicine
9, Avenue de la Foret de Haye, BP 184
54505 Vandoeuvre-les-Nancy Cedex
France
Phone: +33 (0)3.83.68.32.73
Fax: +33 (0)3.83.68.32.79
E-mail: nadir.mra...@medecine.uhp-nancy.fr
Jayashankar wrote:
Dear Scientists,
It may be too much...
But as a biophysics student I would like to appreciate and feel happy
to have pdb
structures as my computers screen savers than to have some funny and
fancy stuffs.
And it may help me as a motivator to solve my own structures in future
I want to ask is there any existing script that grep strucutres one by
one with one line definition of that structure.
S.Jayashankar
Research Student
Institute for Biophysical Chemistry
Hannover Medical School
Germany.
