[gmx-users] dssp extremely slow .. if at all ?

[Anton Feenstra]

Marc Baaden wrote:
> Hi,
> 
[...]
> I'll wait a bit longer and see if something comes out, but I am quite
> surprised that the 2ndary structure determination for a single snapshot
> could possibly take more than 30 seconds .. especially for lysozyme ..
> 
> .. or am I wrong ?

There must be something wrong. Is dssp 'standalone' still working?
Is the maching you use heavily loaded?
Are you reading (& writing) from a slow network disk, or a nearly
full local disk (can be horribly slow also)?


-- 
Groetjes,

Anton
  _____________ _______________________________________________________
|             |                                                       |
|  _   _  ___,| K. Anton Feenstra                                     |
| / \ / \'| | | Dept. of Pharmacochem. - Vrije Universiteit Amsterdam |
|(   |   )| | | De Boelelaan 1083 - 1081 HV Amsterdam - Netherlands   |
| \_/ \_/ | | | Tel: +31 20 44 47608 - Fax: +31 20 44 47610           |
|             | Feenstra at chem.vu.nl - www.chem.vu.nl/~feenstra/       |
|             | "If You See Me Getting High, Knock Me Down"           |
|             | (Red Hot Chili Peppers)                               |
|_____________|_______________________________________________________|