[ccp4bb] Coot File Save Coordinates
Hi Folks, Apologies for a non-CCP4 question. I am trying to write our coordinates following SSM superposition using the File Save Coordinates option in Coot. But if I click the Select Filename button, nothing happens. I thought I would get an option to pick a filename and specify what I want my output coordinate filename to be called. But that isn't happening. Also, clicking on the molecule on the graphics screen (as someone pointed out in a previous post) doesn't help either. I was able to run this very identical routine several times recently so not sure what just happened now! Haven't upgraded Coot or anything. Am using Coot 0.6.2-pre-1 (revision 3468) [with guile 1.8.7 embedded] [with python 2.7.1 embedded]. Help? Thanks. Raji -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University
Re: [ccp4bb] Coot File Save Coordinates
Have you moved your primary window away ? I mean just in case the pop up window opened behind the actual scene window. Jürgen On Aug 15, 2011, at 3:54 PM, Raji Edayathumangalam wrote: Hi Folks, Apologies for a non-CCP4 question. I am trying to write our coordinates following SSM superposition using the File Save Coordinates option in Coot. But if I click the Select Filename button, nothing happens. I thought I would get an option to pick a filename and specify what I want my output coordinate filename to be called. But that isn't happening. Also, clicking on the molecule on the graphics screen (as someone pointed out in a previous post) doesn't help either. I was able to run this very identical routine several times recently so not sure what just happened now! Haven't upgraded Coot or anything. Am using Coot 0.6.2-pre-1 (revision 3468) [with guile 1.8.7 embedded] [with python 2.7.1 embedded]. Help? Thanks. Raji -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University .. Jürgen Bosch Johns Hopkins Bloomberg School of Public Health Department of Biochemistry Molecular Biology Johns Hopkins Malaria Research Institute 615 North Wolfe Street, W8708 Baltimore, MD 21205 Phone: +1-410-614-4742 Lab: +1-410-614-4894 Fax: +1-410-955-3655 http://web.mac.com/bosch_lab/
Re: [ccp4bb] Coot File Save Coordinates
Thanks Mischa and Juergen. That was probably my most ridiculous post to the CCP4BB!! I found the pop-up dialog box hiding behind all my zillion windows. Now why the pop-up window would not pop up actively on top of all other windows is a question for another time. Nevertheless, your replies helped :) Raji On Mon, Aug 15, 2011 at 3:56 PM, Bosch, Juergen jubo...@jhsph.edu wrote: Have you moved your primary window away ? I mean just in case the pop up window opened behind the actual scene window. Jürgen On Aug 15, 2011, at 3:54 PM, Raji Edayathumangalam wrote: Hi Folks, Apologies for a non-CCP4 question. I am trying to write our coordinates following SSM superposition using the File Save Coordinates option in Coot. But if I click the Select Filename button, nothing happens. I thought I would get an option to pick a filename and specify what I want my output coordinate filename to be called. But that isn't happening. Also, clicking on the molecule on the graphics screen (as someone pointed out in a previous post) doesn't help either. I was able to run this very identical routine several times recently so not sure what just happened now! Haven't upgraded Coot or anything. Am using Coot 0.6.2-pre-1 (revision 3468) [with guile 1.8.7 embedded] [with python 2.7.1 embedded]. Help? Thanks. Raji -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University .. Jürgen Bosch Johns Hopkins Bloomberg School of Public Health Department of Biochemistry Molecular Biology Johns Hopkins Malaria Research Institute 615 North Wolfe Street, W8708 Baltimore, MD 21205 Phone: +1-410-614-4742 Lab: +1-410-614-4894 Fax: +1-410-955-3655 http://web.mac.com/bosch_lab/ -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University
Re: [ccp4bb] Coot File Save Coordinates
If you're running Coot on a Mac - it's also unfortunately a well-documented feature, something to do with Apple's implementation of X11. Sent from my iPhone On 15 Aug 2011, at 21:25, Raji Edayathumangalam r...@brandeis.edumailto:r...@brandeis.edu wrote: Thanks Mischa and Juergen. That was probably my most ridiculous post to the CCP4BB!! I found the pop-up dialog box hiding behind all my zillion windows. Now why the pop-up window would not pop up actively on top of all other windows is a question for another time. Nevertheless, your replies helped :) Raji On Mon, Aug 15, 2011 at 3:56 PM, Bosch, Juergen mailto:jubo...@jhsph.edujubo...@jhsph.edumailto:jubo...@jhsph.edu wrote: Have you moved your primary window away ? I mean just in case the pop up window opened behind the actual scene window. Jürgen On Aug 15, 2011, at 3:54 PM, Raji Edayathumangalam wrote: Hi Folks, Apologies for a non-CCP4 question. I am trying to write our coordinates following SSM superposition using the File Save Coordinates option in Coot. But if I click the Select Filename button, nothing happens. I thought I would get an option to pick a filename and specify what I want my output coordinate filename to be called. But that isn't happening. Also, clicking on the molecule on the graphics screen (as someone pointed out in a previous post) doesn't help either. I was able to run this very identical routine several times recently so not sure what just happened now! Haven't upgraded Coot or anything. Am using Coot 0.6.2-pre-1 (revision 3468) [with guile 1.8.7 embedded] [with python 2.7.1 embedded]. Help? Thanks. Raji -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University .. Jürgen Bosch Johns Hopkins Bloomberg School of Public Health Department of Biochemistry Molecular Biology Johns Hopkins Malaria Research Institute 615 North Wolfe Street, W8708 Baltimore, MD 21205 Phone: +1-410-614-4742tel:%2B1-410-614-4742 Lab: +1-410-614-4894tel:%2B1-410-614-4894 Fax: +1-410-955-3655tel:%2B1-410-955-3655 http://web.mac.com/bosch_lab/http://web.mac.com/bosch_lab/ -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University
Re: [ccp4bb] Coot File Save Coordinates
Thanks for pointing that out. -Raji On Mon, Aug 15, 2011 at 4:29 PM, Antony Oliver antony.oli...@sussex.ac.ukwrote: If you're running Coot on a Mac - it's also unfortunately a well-documented feature, something to do with Apple's implementation of X11. Sent from my iPhone On 15 Aug 2011, at 21:25, Raji Edayathumangalam r...@brandeis.edu wrote: Thanks Mischa and Juergen. That was probably my most ridiculous post to the CCP4BB!! I found the pop-up dialog box hiding behind all my zillion windows. Now why the pop-up window would not pop up actively on top of all other windows is a question for another time. Nevertheless, your replies helped :) Raji On Mon, Aug 15, 2011 at 3:56 PM, Bosch, Juergen jubo...@jhsph.edu jubo...@jhsph.edu wrote: Have you moved your primary window away ? I mean just in case the pop up window opened behind the actual scene window. Jürgen On Aug 15, 2011, at 3:54 PM, Raji Edayathumangalam wrote: Hi Folks, Apologies for a non-CCP4 question. I am trying to write our coordinates following SSM superposition using the File Save Coordinates option in Coot. But if I click the Select Filename button, nothing happens. I thought I would get an option to pick a filename and specify what I want my output coordinate filename to be called. But that isn't happening. Also, clicking on the molecule on the graphics screen (as someone pointed out in a previous post) doesn't help either. I was able to run this very identical routine several times recently so not sure what just happened now! Haven't upgraded Coot or anything. Am using Coot 0.6.2-pre-1 (revision 3468) [with guile 1.8.7 embedded] [with python 2.7.1 embedded]. Help? Thanks. Raji -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University .. Jürgen Bosch Johns Hopkins Bloomberg School of Public Health Department of Biochemistry Molecular Biology Johns Hopkins Malaria Research Institute 615 North Wolfe Street, W8708 Baltimore, MD 21205 Phone: +1-410-614-4742 Lab: +1-410-614-4894 Fax: +1-410-955-3655 http://web.mac.com/bosch_lab/http://web.mac.com/bosch_lab/ -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University
Re: [ccp4bb] Coot File Save Coordinates
Hi Raji, Yeah, this can be frustrating. I had a related problem a few years ago. The following thread may be informative: https://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=ind0710L=COOTP=R26791=COOT9=AJ=ond=No+Match%3BMatch%3BMatchesz=4 As Antony points out, it's a problem with X11 as implemented under the quartz window manager in MacOSX. I switched to KDE for a while and that solved the problem, but ultimately found that switching between KDE and quartz was a bit of a pain and reverted back to the latter. HTH, Iain On 8/15/2011 6:08 PM, Raji Edayathumangalam wrote: Thanks for pointing that out. -Raji On Mon, Aug 15, 2011 at 4:29 PM, Antony Oliver antony.oli...@sussex.ac.uk mailto:antony.oli...@sussex.ac.uk wrote: If you're running Coot on a Mac - it's also unfortunately a well-documented feature, something to do with Apple's implementation of X11. Sent from my iPhone On 15 Aug 2011, at 21:25, Raji Edayathumangalam r...@brandeis.edu mailto:r...@brandeis.edu wrote: Thanks Mischa and Juergen. That was probably my most ridiculous post to the CCP4BB!! I found the pop-up dialog box hiding behind all my zillion windows. Now why the pop-up window would not pop up actively on top of all other windows is a question for another time. Nevertheless, your replies helped :) Raji On Mon, Aug 15, 2011 at 3:56 PM, Bosch, Juergen jubo...@jhsph.edu mailto:jubo...@jhsph.edu wrote: Have you moved your primary window away ? I mean just in case the pop up window opened behind the actual scene window. Jürgen On Aug 15, 2011, at 3:54 PM, Raji Edayathumangalam wrote: Hi Folks, Apologies for a non-CCP4 question. I am trying to write our coordinates following SSM superposition using the File Save Coordinates option in Coot. But if I click the Select Filename button, nothing happens. I thought I would get an option to pick a filename and specify what I want my output coordinate filename to be called. But that isn't happening. Also, clicking on the molecule on the graphics screen (as someone pointed out in a previous post) doesn't help either. I was able to run this very identical routine several times recently so not sure what just happened now! Haven't upgraded Coot or anything. Am using Coot 0.6.2-pre-1 (revision 3468) [with guile 1.8.7 embedded] [with python 2.7.1 embedded]. Help? Thanks. Raji -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University .. Jürgen Bosch Johns Hopkins Bloomberg School of Public Health Department of Biochemistry Molecular Biology Johns Hopkins Malaria Research Institute 615 North Wolfe Street, W8708 Baltimore, MD 21205 Phone: +1-410-614-4742 tel:%2B1-410-614-4742 Lab: +1-410-614-4894 tel:%2B1-410-614-4894 Fax: +1-410-955-3655 tel:%2B1-410-955-3655 http://web.mac.com/bosch_lab/ -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University -- -- Raji Edayathumangalam Instructor in Neurology, Harvard Medical School Research Associate, Brigham and Women's Hospital Visiting Research Scholar, Brandeis University
