To get the ribbons 2.45 binary / no support distribution over the network (This is SGI specific, requires IRIX OS IRIX 5.2 or higher) (This is just version 2.4 compiled under IRIX 5.2): 1) Set up a directory named "ribbons" on your machine. Go there: cd /somewhere/on/your/machine/ribbons 2) Get the ~6 megabyte compressed tape archive files. Connect to our machine (xtal.cmc.uab.edu == 138.26.45.1) via FTP: ftp xtal.cmc.uab.edu or ftp 138.26.45.1 Login as "anonymous", e-mail address as password. Issue the following commands: cd /ribbons/rib245 { go to right directory } get untar.csh { get the script to unpack archives } binary { to set file type for transfer } get rib_bin.z { get the executables /bin directory } get rib_dat.z { get the /data directory } get rib_doc.z { get the /doc/rgb/showcase dirs } get rib_etc.z { get assorted extra dirs } bye { quit FTP } The files should be this big (ls -lt): -rw-r--r-- 1 carson cmc 424 Dec 6 09:30 untar.csh -rw-r--r-- 1 carson cmc 1081736 Dec 6 09:20 rib_bin.z -rw-r--r-- 1 carson cmc 906779 Dec 6 09:20 rib_dat.z -rw-r--r-- 1 carson cmc 2070020 Dec 6 09:21 rib_doc.z -rw-r--r-- 1 carson cmc 203493 Dec 6 09:21 rib_etc.z -rw-r--r-- 1 carson cmc 516350 Dec 6 09:21 rib_src.z 3) Uncompress and extract the information. Issue the following commands: csh untar.csh ( you should see many file names scroll by ) Issue the following commands to see if you got it all: ls -F { -F flags directories by adding trailing '/' } { you should see ~13 directories } At this point, you may remove all the *.z archives and untar.csh (unless you want to make a backup in this form). 4) See if it works. All ribbons users must: 1) have the environment variable RIBBONS_HOME set. 2) have the directory $RIBBONS_HOME/bin in their UNIX path. To set the environment variable interactively, Go to your directory "ribbons", type: setenv RIBBONS_HOME `pwd` To set the environment variable automatically on login, Add the line below to your .login or .cshrc file: setenv RIBBONS_HOME /the/full/path/on/your/machine/ribbons To add to your command path interactively, After doing the "setenv", type: set path = ( $path $RIBBONS_HOME/bin ) rehash To add to your command path automatically on login, Add the two lines below to your .login or .cshrc file: setenv RIBBONS_HOME /the/full/path/on/your/machine/ribbons set path = ( $path $RIBBONS_HOME/bin ) Issue the following commands: 1) Run the interactive demo: ribbons-demo Notes: Sweep out the window opened by the interactive program. Choose a model to view with RightMouse pop-up menu. LeftMouse controls scaling, MiddleMouse XY rotations. The workings are supposed to be intuitive. "Help" selected from MainMenu brings up Showcase screens. 2) Run with your data: For a default ribbon of your favorite single-chain protein, create a new directory, go there, copy your coordinates with ONLY the protein atoms in your PDB file, then: ribbon-model prot.pdb "a title" ribbons -n prot 3) Look at some sample images: Brings up the IRIS Showcase with images and the steps required to create them. i-ribbons Notes: "Help" selected from ribbons MainMenu also can call this. Can also read the /data/*.notes files for each model. The documentation will be sent by U.S.Mail if requested. It is also in the doc/ directory in LaTeX format. (The compressed *.ps file is also in the ~/doc directory.) Please also read ascii *.text files in the doc/ directory for extra stuff not yet in the manual. 5) Let me know E-mail after you get & test it. -mike carson@cmc.uab.edu