Installing ARP/wARP

The installation of ARP/wARP is straightforward. We have tried to make it as simple as possible, however there still remain a few steps that have to be taken.

• Install (or make sure you have installed) the CCP4 suite CCP4 (Version 3.4 or later, CCP4 homepage

• Download the full ARP/wARP package arp_warp.tar.gz from the www page, reading this you have most likely already done so. Unzip ('gunzip arp_warp.tar.gz') and untar ('tar xvf arp_warp.tar') it.

  The distribution contains the following:

  • src/: Source files for ARP/wARP
  • bin/: Binaries and scripts. Some preexisting binaries are Irix specific, e.g. an $\alpha$-version for automatic tracing of a density map. Code for these binaries is at present not distributed. Please contact the authors for compiling these programs for different platforms.
  • examples/: Two examples of ARP/wARP usage and an example script of running ARP/wARP in combination with SHELXL shelx97. The examples are: 1) Rubredoxin [(Dauter, Z., Sieker, L.C. and Wilson, K.S. (1992) Refinement of rubredoxin from Desulfovibrio vulgaris at 1.0 A with and without restraints. Acta Crystallogr B48, Part 1, 42-59), PDB id code 8RXN (Bernstein, F.C., Koetzle, T.F., Williams, G.J.B., Meyer, E.F.Jr., Brice, M.D., Rodgers, J.R., Kennard, O., Shimanouchi, T. and Tasumi, M. (1977) The Protein Data Bank: a computer-based archival file for macromolecular structures. J. Mol. Biol. 112, 535-542)], to solve from heavy atoms, auto-build and find waters and 2) Psp (Leishmanolysin) to improve the SIRAS map and then auto-build (Thanks to P. Metcalf for data)

• Go to the src/ directory and type 'make'

• If 'make' gave no error messages, i.e. it compiled OK, then move the files to the bin/ directory by typing 'make install'

• Add the two lines to your setup file .cshrc:
  set path = ($path /full_path/arp_warp_directory/bin )
  setenv warpbin '/full_path/arp_warp_directory/bin'
  

  AP's own setup looks like this:
  set path = ( $path /user2/perrakis/arp_warp_5/bin )
  setenv warpbin '/user2/perrakis/arp_warp_5/bin'

• To run jobs on remote processors the remote shell, rsh, must be allowed. This is normally the case (for details see man pages for rsh and rhosts and consult your systems manager). In your home directory create (or edit) the .rhosts file to say which computers you would like to use with which username. The file could look something like this:
  

  folk.embl-grenoble.fr perrakis
  reggae.embl-grenoble.fr perrakis
  classic.embl-grenoble.fr perrakis
  salsa.embl-grenoble.fr perrakis
  country.embl-grenoble.fr perrakis
  bebop.embl-grenoble.fr perrakis
  

  During arp_warp_setup.sh, when you set the computer names make sure that they are reported 'OK'. If this is not the case check that computers share the same home directory and the .rhosts file is correct.

In principle you should now be ready to run ARP/wARP . We recommend trying to get the two test examples going (look at the README files in the subdirectories of examples/). If there are any problems, first check whether you have copied the two lines for the .cshrc file properly (only change the slanted text). If things still don't work please consult your systems manager. If problems still remain, please contact the originators via the ARP/wARP Email Bulletin Board.

If you're wondering who General Failure is and why he is reading your hard disk then you're really in trouble.