[PyMOL] Persistent PyMOL pipes? Preventing a call to 'cmd.quit()'.
Hi, I am the project administrator for the open source program relax (http://nmr-relax.com or https://gna.org/projects/relax) and am interested in interfacing relax with PyMOL. relax is a program for studying the dynamics of proteins, RNA, or other organic molecules through the analysis of NMR relaxation data and I would like to display the dynamics results superimposed onto molecular structures within PyMOL. I have attempted to open a PyMOL pipe using the '-p' flag however, when relax finishes and closes the pipe, PyMOL terminates printing the message: PyMOL: normal program termination. Is there a simple way to keep the PyMOL binary running after a script terminates? I've searched through the sources but a solution isn't immediately obvious. I've tracked back from the file 'layer5/main.c' where the 'printf()' statement is located back to the function 'CmdQuit' in the file 'layer4/Cmd.c', but can't find what is calling the 'cmd.quit()' method. Thanks, Edward
Re: [PyMOL] Persistent PyMOL pipes? Preventing a call to 'cmd.quit()'.
Edward, Add a "K" keepalive option along with the -p: pymol -pK Cheers, DeLano Scientific LLC Email Support Services > -Original Message- > From: pymol-users-boun...@lists.sourceforge.net > [mailto:pymol-users-boun...@lists.sourceforge.net] On Behalf > Of Edward d'Auvergne > Sent: Sunday, October 29, 2006 9:01 PM > To: pymol-users@lists.sourceforge.net > Subject: [PyMOL] Persistent PyMOL pipes? Preventing a call to > 'cmd.quit()'. > > Hi, > > I am the project administrator for the open source program > relax (http://nmr-relax.com or > https://gna.org/projects/relax) and am interested in > interfacing relax with PyMOL. relax is a program for > studying the dynamics of proteins, RNA, or other organic > molecules through the analysis of NMR relaxation data and I > would like to display the dynamics results superimposed onto > molecular structures within PyMOL. I have attempted to open > a PyMOL pipe using the '-p' > flag however, when relax finishes and closes the pipe, PyMOL > terminates printing the message: > > PyMOL: normal program termination. > > Is there a simple way to keep the PyMOL binary running after > a script terminates? I've searched through the sources but a > solution isn't immediately obvious. I've tracked back from > the file 'layer5/main.c' > where the 'printf()' statement is located back to the > function 'CmdQuit' in the file 'layer4/Cmd.c', but can't find > what is calling the 'cmd.quit()' method. > > Thanks, > > Edward > > -- > --- > Using Tomcat but need to do more? Need to support web > services, security? > Get stuff done quickly with pre-integrated technology to make > your job easier Download IBM WebSphere Application Server > v.1.0.1 based on Apache Geronimo > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&; dat=121642 > ___ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users >
Re: [PyMOL] Persistent PyMOL pipes? Preventing a call to 'cmd.quit()'.
Thank you. That option kept the PyMOL pipe alive. As the option is stored in the structure 'options.keep_thread_alive', would this '-K' option cause a different behaviour of the program or is the program simply run as a parent thread and this option keeps the parent alive? Cheers, Edward On 10/30/06, DeLano Scientific wrote: Edward, Add a "K" keepalive option along with the -p: pymol -pK Cheers, DeLano Scientific LLC Email Support Services > -Original Message- > From: pymol-users-boun...@lists.sourceforge.net > [mailto:pymol-users-boun...@lists.sourceforge.net] On Behalf > Of Edward d'Auvergne > Sent: Sunday, October 29, 2006 9:01 PM > To: pymol-users@lists.sourceforge.net > Subject: [PyMOL] Persistent PyMOL pipes? Preventing a call to > 'cmd.quit()'. > > Hi, > > I am the project administrator for the open source program > relax (http://nmr-relax.com or > https://gna.org/projects/relax) and am interested in > interfacing relax with PyMOL. relax is a program for > studying the dynamics of proteins, RNA, or other organic > molecules through the analysis of NMR relaxation data and I > would like to display the dynamics results superimposed onto > molecular structures within PyMOL. I have attempted to open > a PyMOL pipe using the '-p' > flag however, when relax finishes and closes the pipe, PyMOL > terminates printing the message: > > PyMOL: normal program termination. > > Is there a simple way to keep the PyMOL binary running after > a script terminates? I've searched through the sources but a > solution isn't immediately obvious. I've tracked back from > the file 'layer5/main.c' > where the 'printf()' statement is located back to the > function 'CmdQuit' in the file 'layer4/Cmd.c', but can't find > what is calling the 'cmd.quit()' method. > > Thanks, > > Edward > > -- > --- > Using Tomcat but need to do more? Need to support web > services, security? > Get stuff done quickly with pre-integrated technology to make > your job easier Download IBM WebSphere Application Server > v.1.0.1 based on Apache Geronimo > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&; dat=121642 > ___ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users >
