Hi Sajeewa, have you tried one of the alignment commands (align, super, cealign)?
http://pymolwiki.org/index.php/Align You can't align "files", only "objects". So if your session files contain only one object each, this is trivial. If they contain multiple objects which need to be aligned in concert, you need the "matrix_copy" command: http://pymolwiki.org/index.php/Matrix_Copy Hope that helps. Cheers, Thomas On 05/11/2012 09:49 PM, Sajeewa Pemasinghe wrote: > Hello, > > I have three intramolecular tunnels in three pymol session (.pse) files. > Two .pse files are corresponding to the same snapshot in molecular > dynamics. The third .pse file is > for a different snapshot. I want to merge these .pse files using > commands like > > load first.pse > load second.pse,partial=1 > load third.pse,partial=1 > > The problem is the third.pse file which is corresponding to a different > snapshot in molecular dynamics is not aligning properly if I do like > above. Could anyone please advise > me on how to align all the three .pse files into one merged .pse file? > I highly appreciate your help. > > Thank you > > Sajeewa Dewage -- Thomas Holder MPI for Developmental Biology Spemannstr. 35 D-72076 Tübingen ------------------------------------------------------------------------------ Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ _______________________________________________ PyMOL-users mailing list ([email protected]) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/[email protected]
