Re: [PyMOL] OS X 10.5 and Pymol Quicktime files -- SOLVED

2008-03-03 Thread Michael Murray
It appears that Warren was correct and that the Apple Intermediate Codec is not included with OS X or Quicktime. I went to an old backup of our Mac and found AppleIntermediateCodec.component in /Library/ Quicktime. Copying the codec over to the new install solved all of our problems. On

[PyMOL] mixed ribbons and cylinders

2008-03-03 Thread Michael Oldham
I wish to make a figure which has some helices shown as cylinders and some shown as the default cartoon automatic representation. I can change all the helices to cylinders, but when I try to select some to go back to cartoon automatic nothing changes. Any suggestions of a better way. Thanks --

[PyMOL] How to use PyMOL without GUI ?

2008-03-03 Thread Yang, Zheng
Dear All, Would you please remind me how to start PyMOL in Linux, without the GUI, only command lines? Just like Matlab, we using ‘matlab -nojvm’ to disable the graphic interface. I am running PyMOL to ray-trace a figure. But the protein is too big. It always run out of memory. So I am

Re: [PyMOL] mixed ribbons and cylinders

2008-03-03 Thread Tsjerk Wassenaar
Hi Michael, I believe this is version specific, but for the < 1.0 series the settings are object specific. So in order to get what you want, you best create a new object for the parts you want to show the cartoon as cylinders, and set cartoon_cylindrical_helices, 1, newobject Hope it helps, Tsj