That really is a strange problem. I wouldn't run relax as root though. We've used safe routines, security wise, in relax but running as root is probably not a good idea. This is likely to be an issue with the computer set up and the non-local mount points.
Regards, Edward On Thu, Nov 6, 2008 at 2:56 AM, Tyler Reddy <[EMAIL PROTECTED]> wrote: > Yeah it's a permission problem. The same thing happens with XPLOR-NIH writing > files to the mount directory. The command: > > sudo relax full_analaysis.py > > does the trick. I'm pretty sure I could also chmod a+w the parent directory or > just execute the script as root. > > Tyler > > Quoting Edward d'Auvergne <[EMAIL PROTECTED]>: > >> Hmmm, that's quite strange. Does the 'oblate/init' directory exist >> while the results file is missing? >> >> Regards, >> >> Edward >> >> >> On Wed, Nov 5, 2008 at 9:42 PM, Tyler Reddy <[EMAIL PROTECTED]> wrote: >>> I just got the same problem with 'oblate', and that folder was removed. >>> I wonder >>> if there's a problem with doing this via the NFS mount. Maybe a permissions >>> thing with directory creation from the python script run on the CPU >>> of another >>> machine writing results to the mount. >>> >>> Tyler >>> >>> >>> >>> Quoting Edward d'Auvergne <[EMAIL PROTECTED]>: >>> >>>> Tyler, >>>> >>>> This is an easy one. Just delete the ellipsoid directory! >>>> >>>> The problem is that the full_analysis.py scipt is not very robust. >>>> It's checking for the 'ellipsoid/init' directory to determine which >>>> round of optimisation it is up to. Maybe it would be an idea to >>>> modify the script to be more robust to handle the directory existing >>>> yet the final results file being missing for any round. I would guess >>>> that relax was killed during its execution, hence the directory exists >>>> yet the results are missing. I can't do this at the moment but if you >>>> would like play with some python coding to implement it yourself, the >>>> changes could be incorporated back into relax for the benefit of all. >>>> This may not be simple though, so just deleting the offending >>>> directory will do the trick. >>>> >>>> Regards, >>>> >>>> Edward >>>> >>>> >>>> On Wed, Nov 5, 2008 at 6:59 PM, Tyler Reddy <[EMAIL PROTECTED]> wrote: >>>>> Hi, >>>>> >>>>> Using the full analysis script, optimization of the 'ellipsoid' >>>>> model crashes >>>>> out early with the following output: >>>>> >>>>> relax> results.write(file='results', dir='ellipsoid/init/', force=True, >>>>> compress_type=1) >>>>> Opening the file 'ellipsoid/init//results.bz2' for writing. >>>>> RelaxError: Cannot open the file 'ellipsoid/init//results.bz2'. No >>>>> such file or >>>>> directory. >>>>> >>>>> I'm not sure why it would try to open this directory though. Isn't >>>>> it odd that >>>>> there are 2 forward slashes? >>>>> >>>>> Tyler >>>>> >>>>> >>>>> _______________________________________________ >>>>> relax (http://nmr-relax.com) >>>>> >>>>> This is the relax-users mailing list >>>>> [email protected] >>>>> >>>>> To unsubscribe from this list, get a password >>>>> reminder, or change your subscription options, >>>>> visit the list information page at >>>>> https://mail.gna.org/listinfo/relax-users >>>>> >>>> >>>> _______________________________________________ >>>> relax (http://nmr-relax.com) >>>> >>>> This is the relax-users mailing list >>>> [email protected] >>>> >>>> To unsubscribe from this list, get a password >>>> reminder, or change your subscription options, >>>> visit the list information page at >>>> https://mail.gna.org/listinfo/relax-users >>>> >>> >>> >>> >>> >>> _______________________________________________ >>> relax (http://nmr-relax.com) >>> >>> This is the relax-users mailing list >>> [email protected] >>> >>> To unsubscribe from this list, get a password >>> reminder, or change your subscription options, >>> visit the list information page at >>> https://mail.gna.org/listinfo/relax-users >>> >> > > > > > _______________________________________________ > relax (http://nmr-relax.com) > > This is the relax-users mailing list > [email protected] > > To unsubscribe from this list, get a password > reminder, or change your subscription options, > visit the list information page at > https://mail.gna.org/listinfo/relax-users > _______________________________________________ relax (http://nmr-relax.com) This is the relax-users mailing list [email protected] To unsubscribe from this list, get a password reminder, or change your subscription options, visit the list information page at https://mail.gna.org/listinfo/relax-users
