Re: [ccp4bb] warp/arp 7.0.1 to really use the Free R flag

2008-04-29 Thread Anastassis Perrakis
Dear Jorge, I was unable to reproduce the error you report with 7.0.1. I selected an MTZ file, then chose 'use' FreeR flag and I run the job. I get: #CCP4I VERSION CCP4Interface 1.4.4.2 #CCP4I SCRIPT LOG arp_solvent #CCP4I DATE 29 Apr 2008 10:56:28 #CCP4I USER Tassos ... mtz labels taken: FP

Re: [ccp4bb] ccp4 install on Leopard

2008-04-29 Thread Andreas Förster
A few month's back, and a few moments before almost throwing my Powerbook out the window, I enabled the root account, as officially described (http://docs.info.apple.com/article.html?artnum=106290): How to enable the root user Mac OS X 10.5 or later 1. From the Finder's Go menu, choose

Re: [ccp4bb] ccp4 install on Leopard

2008-04-29 Thread Konrad Hinsen
On Apr 29, 2008, at 11:25, Andreas Förster wrote: Why working with sudo is safer than working as root is not clear to me. After all, the danger is not in root but in the uneducated user. If you're paranoid, you can keep using sudo until you get stuck and then switch to root. There are

Re: [ccp4bb] ccp4 install on Leopard

2008-04-29 Thread James Stroud
On Apr 29, 2008, at 2:25 AM, Andreas Förster wrote: Why working with sudo is safer than working as root is not clear to me. After all, the danger is not in root but in the uneducated user. The danger *is* in root, if for no other reason than you must type sudo before you issue that command

Re: [ccp4bb] ccp4 install on Leopard

2008-04-29 Thread PhilEvans
I've not found it necessary to activate root. I've installed quite a lot of stuff in /usr/local but found it useful to make /usr/local belong to me (sudo chown -R me /usr/local). With fink, I use sudo not found it inconvenient (you can use sudo -s to go into admin mode until further

Re: [ccp4bb] ccp4 install on Leopard

2008-04-29 Thread Dirk Kostrewa
I usually install crystallographic software as administrator using sudo under /usr/local/xtal and make it readable/executable for all users. This is sufficient in my experience. Best regards, Dirk. Am 29.04.2008 um 12:51 schrieb PhilEvans: I've not found it necessary to activate root.

[ccp4bb] postdoctoral position

2008-04-29 Thread Roger Williams
A postdoctoral position is available in the group of Roger Williams focusing on the biogenesis of multivesicular endosomes in lysosomal sorting. You will make a significant contribution to a research programme that will unravel the biogenesis of the multivesicular body and reconstitute

[ccp4bb] Coot surfaces

2008-04-29 Thread Sickmier, Allen
Hi All, Is there a way to draw surfaces in coot, or is there a nice associated program that will draw surfaces in coot. I know about the dotted surface but I was looking for more of a continuous surface. Like insight or pymol. Allen

Re: [ccp4bb] Coot surfaces

2008-04-29 Thread Paul Emsley
Sickmier, Allen wrote: Hi All, Is there a way to draw surfaces in coot, or is there a nice associated program that will draw surfaces in coot. I know about the dotted surface but I was looking for more of a continuous surface. Like insight or pymol. Hi Allen, Yes there is a way (if

[ccp4bb] Helical wheel drawing

2008-04-29 Thread Neeraj
Hi all, I am looking for a software that can help me draw a helical wheel diagram with appropriate coloring of the residues for a few peptides. Does anyone knows a cool program for the same. thanks Neeraj -- Neeraj Kapoor TPCB Graduate Fellow Sakmar Lab/ Molecular Biology Biochemistry

Re: [ccp4bb] ccp4 install on Leopard

2008-04-29 Thread Meyer, Peter
Regarding reason 1, you can configure sshd to block root from logging in remotely (PermitRootLogin no in /etc/ssh/sshd_config). I was surprised to see that this wasn't the default in some systems, but made sure to turn it on after I saw my first dictionary attack (and since). Not that I

[ccp4bb] discontinuous data wedges in XDS

2008-04-29 Thread Van Den Berg, Bert
Hi all, is it possible to input discontinuous data wedges into XDS (obtained from for example inverse beam sweeps)? (So wedge se1 goes from 0-90 deg (image 1-90), se2 from 180-270 (image 1-90), etc). Or do I have to rename everything so that I get one data file in which the rotation ranges are

[ccp4bb] Are Calcium Citrate Crystals A Common False Positive?

2008-04-29 Thread Sam Stephenson
Are calcium citrate crystals a common false positive in trays with up to 200mM of each? There is absolutely no phosphate in the trays so I'm almost positive they're not calcium phosphate. Cheers, Sam - Be a better friend, newshound, and know-it-all with

Re: [ccp4bb] Are Calcium Citrate Crystals A Common False Positive?

2008-04-29 Thread Jim Pflugrath
That's an easy hypothesis to test. Simply set up your drops with the same conditions except without protein and see if you get crystals. Please let us know the results. Thanks! Jim On Tue, 29 Apr 2008, Sam Stephenson wrote: Are calcium citrate crystals a common false positive in trays

Re: [ccp4bb] Are Calcium Citrate Crystals A Common False Positive?

2008-04-29 Thread Charlie Bond
Jim Pflugrath wrote: That's an easy hypothesis to test. Simply set up your drops with the same conditions except without protein and see if you get crystals. Not always. I've had a few cases where the protein turns out to be the essential additive in order to obtain salt crystals! Looking

Re: [ccp4bb] Are Calcium Citrate Crystals A Common False Positive?

2008-04-29 Thread Dunten, Pete W.
And how will you know if they are the calcium citrate xtals Sam asked about, and not sodium citrate xtals? Sodium citrate in the Hampton Crystal Screen condition will crystallize out at 4 degrees. It's solubiility is pH and temperature dependent. You'll need to go to your friendly