The problem is that every directory in lib/data/monomers has to be
world "writeable" in order to use nfsv4
for refmac to run. Something that clearly I don't want to do...
And why just the monomers directory.... is refmac trying to write
something, or is it a broken nfslock
I can easily fix this with an NFS v3 mount. Which is what I have done.
Just wondered if anyone else has experienced this.
On Sep 2, 2009, at 4:45 AM, Adam Ralph wrote:
Hi David,
Do all the client machines have NFSv4? You can force a mount to use
NFSv3 by using "nfsvers=3" as a mount option. I guess that the server
might have something similar. That would allow you to make more secure
directory settings. I am not sure how to fix the problem, it could be a
bug. Certainly permissions on the lower directories are important, 'x'
allows you to `cd` into that directory.
Adam
On Tue, 1 Sep 2009, David Jones wrote:
Hi Adam
I can write to the server, I can edit the files.
overrode default permission, mounted as rw etc...
Turns out every directory under monomers has to be owned by the user
or have rwx permission for everyone set.
I have made sure extended access control lists are turned off,
mounted with insecure locking etc etc.
nfs3 works without any problem with default permissions...
not sure what I am missing here..
David
------------------------------------------------
David N. M. Jones, Ph.D.
Associate Professor
Dept. of Pharmacology
Univ. of Colorado Denver
12801 East 17th Ave
MS 8303, PO Box 6511
Aurora, CO 80045
e-mail david.jo...@ucdenver.edu
Tel. (303) 724-3600
Cell (303) 916-7246
On Sep 1, 2009, at 6:47 AM, Adam Ralph wrote:
Hi David,
You have probably sorted this by now but can you save any
files remotely to the server? The nfs disk will have mount
options that could make it readonly, these will supercede
any local permissions. Check /etc/fstab.
Adam
On Sat, 29 Aug 2009, David Jones wrote:
I would appreciate if any one has any ideas on this
I have a strange NFS related problem, if anyone has any ideas...
I am running refmac with the ccp4 directories mounted on an nfs
share (v4) mounted under /usr/local
I get the following error...
#CCP4I TERMINATION STATUS 0 Last system error message: Permission
denied Refmac_5.5.0072: Open failed: File: /usr/local/ccp4-6.1.1/
lib/data/monomers/mon_lib_ind.cif
However, to test this I have changed the permissions to 777 and uid
and gid to the user's account.
The user can see the file, and can even edit the file on the remote
server.
and yet it still fails. If I run refmac from the users account on
the nfs server directly, then it runs with no problem.
This is running under CentOS 5.3, fully patched etc, with SE linux
turned off
------------------------------------------------
David N. M. Jones, Ph.D.
Associate Professor
Dept. of Pharmacology
Univ. of Colorado Denver
12801 East 17th Ave
MS 8303, PO Box 6511
Aurora, CO 80045
e-mail david.jo...@ucdenver.edu
Tel. (303) 724-3600
Cell (303) 916-7246
