[ccp4bb] YSBL server

2009-07-26 Thread Garib Murshudov
Dear all Since last announcement the number of usage of YSBL server was more than our server could cope. That is why we had to close it for few days and upgrade the sfotware on the server. Now YSBL programs server is open again and it should be able to cope (at least for a while). All

[ccp4bb] ccp4i, OS X 10.5.7, security enforcement

2009-07-26 Thread James Stroud
Hello All, It seems that sh has a variable that exists and doesn't exist at the same time (see my shell session below). Isn't such transition between existence and non-existence reserved for quantum mechanics and eastern philosophy? My guess is that sh has become more vigilant about

Re: [ccp4bb] ccp4i, OS X 10.5.7, security enforcement

2009-07-26 Thread William Scott
When I do this with /bin/zsh, it does the right thing. The source command in the bltwish shell gives me ccp4i. When I run the commands interactively in bash or sh (which is bash on os x), the command exec ${CCP4I_TCLTK}/bltwish $0 -- ${1+$@} terminates the shell session instead of turning it

[ccp4bb] output from DM

2009-07-26 Thread Putcha, Balananda Dhurjati Kumar
Dear CCP4Â’ers, This is a follow up of my previous query on density modification. I want to know if I need to use the phases (the *.mtz file) that are output from DM into subsequent cycles of Refmac or to use the original data file for refinement and model building. Thank you Kumar

Re: [ccp4bb] ccp4i, OS X 10.5.7, security enforcement

2009-07-26 Thread Edward A. Berry
William Scott wrote: .. So I think your process is getting killed before you look at the cat in the box. If it is a question of ${CCP4I_TCLTK} not getting assigned, the error you should see looks like this: bash: /bltwish: No such file or directory bash: exec: /bltwish: cannot execute: No such

Re: [ccp4bb] ccp4i, OS X 10.5.7, security enforcement

2009-07-26 Thread William Scott
On Sun, July 26, 2009 5:38 pm, Edward A. Berry wrote: William Scott wrote: .. So I think your process is getting killed before you look at the cat in the box. If it is a question of ${CCP4I_TCLTK} not getting assigned, the error you should see looks like this: bash: /bltwish: No such file

Re: [ccp4bb] ccp4i, OS X 10.5.7, security enforcement

2009-07-26 Thread William Scott
On Sun, July 26, 2009 6:07 pm, William Scott wrote: On Sun, July 26, 2009 5:38 pm, Edward A. Berry wrote: William Scott wrote: .. So I think your process is getting killed before you look at the cat in the box. If it is a question of ${CCP4I_TCLTK} not getting assigned, the error you

Re: [ccp4bb] Problem with different map when ligand refinement

2009-07-26 Thread Christine Gee
Dear TriNigo I would put waters in all the other difference density first (there are several obvious waters even in the section of map you sent with your email), without the substrate, and see if you see any more clues as to what's going on. Do you expect something to be added on the