I try to play with apbs and finally it is working. But some time it is still giving me following message
ObjectMapLoadDXFile-Error: Unable to open file! because it is not generating the dx file. thanks and regards sn --- pymol-users-requ...@lists.sourceforge.net wrote: > Send PyMOL-users mailing list submissions to > pymol-users@lists.sourceforge.net > > To subscribe or unsubscribe via the World Wide Web, > visit > > https://lists.sourceforge.net/lists/listinfo/pymol-users > or, via email, send a message with subject or body > 'help' to > pymol-users-requ...@lists.sourceforge.net > > You can reach the person managing the list at > pymol-users-ad...@lists.sourceforge.net > > When replying, please edit your Subject line so it > is more specific > than "Re: Contents of PyMOL-users digest..." > > > Today's Topics: > > 1. rms values for several states (Daniel > Hasenpusch) > 2. tube thickness (Alexandra Deaconescu) > 3. Problem with Installation of PyMOL 0.98 on > WinXP Pro SP2 (Brian A. Canada) > 4. APBS help (surendra negi) > > --__--__-- > > Message: 1 > From: "Daniel Hasenpusch" <daniel.hasenpu...@gmx.de> > To: <pymol-users@lists.sourceforge.net> > Date: Thu, 14 Jul 2005 13:56:53 +0200 > Subject: [PyMOL] rms values for several states > > This is a multi-part message in MIME format. > > ------=_NextPart_000_0011_01C5887B.E3ECD070 > Content-Type: text/plain; > charset="iso-8859-1" > Content-Transfer-Encoding: quoted-printable > > Hi, > > I made Molecular Dynamics studies on a wildtype > enzyme and its mutants. = > To compare the structures (in pymol 40 states for > each enzyme) I have to = > find out which state of the one enzyme has the best > rms to the other = > enzyme. Are there possibilities to solve this > problem in pymol or maybe = > in python? I have not much experience writing python > scripts for pymol. = > The best solution is a list which shows the best rms > and the states, or = > a list of all compared states with their rms values > so I can simply see = > which one will be a good pair. > My second question is: How to measure distances over > all states and send = > them to an output - file? > > Regards > Daniel=20 > > ------=_NextPart_000_0011_01C5887B.E3ECD070 > Content-Type: text/html; > charset="iso-8859-1" > Content-Transfer-Encoding: quoted-printable > > <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0 > Transitional//EN"> > <HTML><HEAD> > <META http-equiv=3DContent-Type > content=3D"text/html; = > charset=3Diso-8859-1"> > <META content=3D"MSHTML 6.00.2800.1498" > name=3DGENERATOR> > <STYLE></STYLE> > </HEAD> > <BODY bgColor=3D#ffffff> > <DIV>Hi,</DIV> > <DIV><FONT face=3DArial size=3D2></FONT> </DIV> > <DIV><FONT face=3DArial size=3D2>I made Molecular > Dynamics studies on a = > wildtype=20 > enzyme and its mutants. To compare the > structures (in pymol 40 = > states for=20 > each enzyme) I have to find out > which</FONT> <FONT = > face=3DArial=20 > size=3D2>state of the one enzyme has the best rms > to the other=20 > enzyme. Are there possibilities to solve > this problem in = > pymol or=20 > maybe in python? I have not much experience > writing python scripts = > for=20 > pymol. The best solution is a list which > shows the best rms = > and the=20 > states, or a list of all compared states with > their rms values so I = > can=20 > simply see which one will be a > good pair.</FONT></DIV> > <DIV><FONT face=3DArial size=3D2>My second question > is: How to = > measure=20 > distances over all states and send > them to an output -=20 > file?</FONT></DIV> > <DIV> </DIV> > <DIV>Regards<BR><FONT face=3DArial=20 > size=3D2>Daniel</FONT> <BR></DIV></BODY></HTML> > > ------=_NextPart_000_0011_01C5887B.E3ECD070-- > > > > --__--__-- > > Message: 2 > Date: Thu, 14 Jul 2005 14:13:23 -0400 > From: Alexandra Deaconescu > <deac...@mail.rockefeller.edu> > To: pymol-users@lists.sourceforge.net > Subject: [PyMOL] tube thickness > > Dear all, > > Is there a way to adjust the cartoon tube thickness > in Pymol? I have > tried using cartoon_tube_radius but it does not seem > to work. I am > using MacPymol version 0.95. > > Thank you very much in advance, > Alexandra > > > > --__--__-- > > Message: 3 > Date: Thu, 14 Jul 2005 16:28:50 -0400 (EDT) > To: pymol-users@lists.sourceforge.net > From: "Brian A. Canada" <can...@psu.edu> > Subject: [PyMOL] Problem with Installation of PyMOL > 0.98 on WinXP Pro SP2 > > Hi everyone, > > I am trying to install PyMOL 0.98 on my machine, but > when I click on SETUP.EXE, > I get the following error message, in a dialog box > that reads "16-bit Windows > Subsystem.": > > "C:\WINDOWS\SYSTEM32\AUTOEXEC.NT. The system file is > not suitable for running > MS-DOS and Microsoft Windows applications. Choose > 'Close' to terminate the > application." > > > Has anyone else encountered this error? I don't > understand why it should be > having trouble with my system. I'm running Windows > XP Professional, and I just > installed Service Pack 2, and that didn't solve the > problem. I've noticed that > there is no "AUTOEXEC.NT" file in my System32 > folder, which I thought was > peculiar. > > I'm hoping that someone out there would know how I > can get around this. In the > meantime, I'm going to try installing the Mac > version on my powerbook at home. > Somehow I suspect the installation will go much > smoother on that machine... > > Thanks in advance, > Brian > > > > > > > > > > > > --__--__-- > === message truncated === __________________________________________________ Do You Yahoo!? Tired of spam? Yahoo! Mail has the best spam protection around http://mail.yahoo.com
