Re: [ccp4bb] environ.def / default.def

Probably. You should source either the first or the second file depending on your shell (the first for bash, the second for tcsh/csh). That might be the cause of your subsequent problem. For purposes of debugging, can you send us output for the following three commands: echo $PATH echo $CCP4

Re: [ccp4bb] environ.def / default.def

Hello again, thanks to some people for their fast and helpfully very detailed advice: Including source /usr/local/software/ccp4/ccp4-6.0.2/include/ccp4.setup-bash source /usr/local/software/ccp4/ccp4-6.0.2/include/ccp4.setup

Re: [ccp4bb] My New Address

Can someone delete the old address from the ccp4bb? I've tried emailing but to no avail. On Fri, May 16, 2008 2:28 pm, [EMAIL PROTECTED] wrote: > Hello, > > Your message has been automatically forwarded to my new address which is: > > sanjukta.aich at usask.ca (replace at with the @ symbol) > >

Re: [ccp4bb] environ.def / default.def

On Fri, May 16, 2008 1:06 pm, Eike Schulz wrote: > Hello everybody, > > > > setenv CCP4_MASTER /usr/local/software/ccp4 > setenv CCP4 $CCP4_MASTER/ccp4-6.0.2 > For bash, zsh, etc, you need to start with export CCP4

Re: [ccp4bb] No permission to CCP4I_TOP dir

Hi Raja: The root shell isn't inheriting the environment, so to ensure that everything is set up correctly, do this: sudo -s source /sw/bin/init.sh ccp4i The /sw/bin/init.sh will (indirectly) source the whole ccp4 environment setup file. On Fri, May 16, 2008 10:52 am, Raja Dey wrote: > Hi Bil

[ccp4bb] environ.def / default.def

Hello everybody, once more a beginners question on some probably Linux related problem. Eventhough my ccp4 installation seemed to work fine all the way MTZDUMP and the applications which use it (namely refmac ...) unfortunatly fail with the following error: ---

Re: [ccp4bb] Phaser compile errors

Hello, I did what you recommended, and Phaser did compile. I got a slew of other errors output, though; errors in EditString.C, hardcopy_ctrl.c, xloggraph.c, log_file.c, and some others, all concerning graphical elements, I think. Hopefully they are innocuous. What I see is ccp4i starting a

Re: [ccp4bb] Position available in High Throughput Crystallization- corrected contact information.

CORRECTED CONTACT INFORMATION *Structural Genomics Crystallization* A technician position is now available at the Albert Einstein College of Medicine to participate in the the New York Structural Genomix Research Consortium (NYSGXRC; www.nysgxrc.org). The NYSGXRC is one

Re: [ccp4bb] Phaser compile errors

I think CCP4 gives you the option to include the Python sources (v 2.4). That would be better than to mess with the system python. BTW: I've fixed the problems you are seeing a long time ago, even before Python 2.5 was released. In the next CCP4 release it'll probably work with the system python. R

[ccp4bb] crystallisation robot

Joe The Oryx robots take about 8 minutes to dispense 96 wells, plus about a minute to pick up protein etc. Evaporation is not an issue even for 100 + 100 nl drops, because there's an evaporation shield. This can include microseeding into screens (the D'Arcy "MMS" method) - which we now reg

Re: [ccp4bb] No permission to CCP4I_TOP dir

Dear Raja, The problem appears to be that you are not the owner of the CCP4, but root is; this can happen even if you are the only user. From your email it looks CCP4 "belongs" to root. There are three solutions: 1. cd $CCP4 cd .. sudo chown -R yourname.yourgroup 2. for ARP/wARP install

[ccp4bb] No permission to CCP4I_TOP dir

Hi, Could you please tell me how I can get permission to the CCP4I_TOP dir? When I am trying to plugg ARP/wARP GUI into the CCP4i interface, after clicking apply it says I have no permission. I am the only user of my macbook with intel core 2 duo (OSX 10.5). I also tried as follows: anand2

Re: [ccp4bb] poll: cutoff for "high resolution"

IMHO the word "high" is an useless way to describe your resolution. We're scientists. We measure things. Things called numbers. So why not use them? The words "high" and "low" are about as useful in scientific literature as "large" and "small", "many" and "few", "old" and "new" or the eve

Re: [ccp4bb] Phaser compile errors

It looks like you need to install python2.4 (and python2.4-dev if using the package manager) and use that as the default during the build (remove /usr/bin/python and symlink it to python2.4 instead of /usr/bin/python2.5 ; after compiling phaser you can change it back). Pete -Original Mess

Re: [ccp4bb] UV light source for protein xtal detection

I haven't read all of these submissions. Are we talking about UV illumination to create visible light? The work we intend to emulate is this: From Cipriani and Bourgeois's groups in Grenoble -- Acta Cryst. (2006). D62, 253-261. UV laser-excited fluorescence as a tool for the visualization of

Re: [ccp4bb] UV light source for protein xtal detection

There is a paper that may be of interest J.Applied Crystallography September 2005 by Christopher S. Lunde etal where they converted a light microscope to a UV for screening protein microcrystals. Marie -Original Message- From: CCP4 bulletin board [mailto:[EMAIL PROTECTED] On Behalf Of Jam

Re: [ccp4bb] UV light source for protein xtal detection

It is not the light source that is expen$ive, but rather the microscope optics and the camera. Standard optical glass has a fairly high absorption in the UV. In most cases you can replace the glass with quartz by addig a "0" to the end of the price (before the decimal point). The camera is a

[ccp4bb] Position available in High Throughput Crystallization- corrected contact information.

*Structural Genomics Crystallization* A technician position is now available at the Albert Einstein College of Medicine to participate in the the New York Structural Genomix Research Consortium (NYSGXRC; www.nysgxrc.org). The NYSGXRC is one of four NIH-funded high throu

[ccp4bb] Workshop HTP Crystallization and information Management

Dear All A few places are still available for the workshop entitled "HTP Crystallization and information Management", which will be held on 18-20 June 2008 at NKI ,Amsterdam. This jointly sponsored workshop TEACH-SG and BIOXHIT is open to all applicants. The course will include lectures and pr

[ccp4bb] Phaser compile errors

I'm installing CCP4 and Phaser/CCTBX on a 64 bit machine (4 intel xeon cpus) running Ubuntu 8.04 with the 2.6.24-16-generic kernel (this linux was downloaded and installed just last week).  I followed the instructions (untar ccp4*.tgz, untar phaser*.tgz, edit ccp4.setup, source ccp4.setup, configur

Re: [ccp4bb] problem of crystallization

Hi Jennifer, clear drops can still be brought to supersaturation by: -transfer to wells with lower vapour pressure: exchange or add LiCl or other concentrated salt solutions in the reservoir -temperature gradient: place trays on ice/cold surface while hanging drops are at higher temperature, th

Re: [ccp4bb] problem of crystallization

Hi Jennifer I just want to draw your attention the following paper regarding methylation of Lysines, which reduces the solubility of their test proteins. Walter

Re: [ccp4bb] poll: cutoff for "high resolution"

Hi All, A problem with this is what do we mean by 1.2A data? I/sigma = 2 etc? (not intended to restart the old resolution cutoff discussion) >From a personal point of view, I like to consider what features I can see in the experimental electron density - so relatively high resolution is when I ca