VMD-L Mailing List

From: Bob Johnson (bobjohnson1981_at_gmail.com)
Date: Tue Oct 27 2009 - 12:22:03 CDT

Hello everyone,
I'm performing some analysis on peptide conformations over the course
of a trajectory. I use "mol ssrecalc 0" on each frame and write the
secondary structure information to a file with "$sel get structure".
This seems to work fine...except that for many frames I obtain the
following error messages:
ERROR) Unable to find Stride output file: /usr/tmp/fileukCAna
ERROR) Stride::read_stride_record: unable to read output file from Stride
ERROR) Call to Stride program failed

This doesn't happen for every frame, but it happens often enough that
I'm wondering what's going on. VMD can read my PDB input file fine -
the structure doesn't have any connectivity defects. What is causing
the error messages?
Thanks,
Bob 

--
Bob Johnson, PhD
Institute for Computational Molecular Science
Temple University
1900 North 12th Street
Philadelphia, PA 19122
http://www.sas.upenn.edu/~robertjo