At MSG:

You can either sit in front of an SGI to run Denzo, or you can remotely log into one of the SGI's and run Denzo from your desktop (to see which SGI's are not being used, click here and follow the computer usage links).

• While sitting at an SGI, type:
  • prepare denzo (or prepare denzo_q315 for ALS8.3.1-collected data)
  • xdisp </path/to/image/files/imagefile.img>
• While at your desktop PC or Mac:
  • open an X-window on your desktop computer and make sure to do 'xhost +'. This will then display the text "access control disabled, clients can connect from any host". Best is to edit your .cshrc file and add 'xhost +' to it.
  • ssh <sgi-name>.ucsf.edu
  • setenv DISPLAY <desktop.IP.address:0.0> (click on the link to find your desktop's IP address)
  • prepare denzo (for UCSF in-house-collected data) OR prepare denzo_q315 (for ALS 8.3.1-collected data)
  • xdisp </path/to/image/files/imagefile.img>

At ALS8.3.1:

FINALLY, we've gotten Denzo working at beamline 8.3.1!

rlogin to any one of crush01, crush02, crush03, crush05, or crush06.

At the prompt, type:

source ~/denzo/denzo.setup

This setup file assumes that you've collected in binned mode, which is the most common thing to do. Then, xdisp </path/to/image/files/imagefile.img>

Get your data from ALS to MSG by following Seth's handy instructions.

The HKL package (XdisplayF, Scalepack & Denzo) is installed on the SGI's. The current version of the manual is available online as a pdf file at the HKL Web Page or locally.

list of available formats.

Available commands:

  xdisp [filename] hklpredictions -- frame viewer

  denzo, denzobig -- various sizes of DENZO

  scalepack, scalepackbig, scalepackverybig -- various sizes of SCALEPACK