<div dir="ltr">Hello,<br><br>It turns out !genprism does work, it was just another input error on my part. !genbox however doesn't, and !rgenbox too. The directory you posted isn't on my computer. In fact I can't find any files called "readme" at all.<br>
<br>I get many many lines of this with rgenbox: <br><br><font style="font-family: courier new,monospace;" size="1">xform: (standard input): warning - empty file<br>xform: (!rgenbox red_tile tile_a 1 1 .1 -b .025 | xform -t 1 1 -.1): warning - empty file<br>
sh: rgenbox: not found<br>xform: (standard input): warning - empty file<br>xform: (!rgenbox white_tile tile_a 1 1 .1 -b .025 | xform -t 0 1 -.1): warning - empty file<br>sh: rgenbox: not found</font><br> <br>...or this with genbox:<br>
<br><font size="1"> <span style="font-family: courier new,monospace;">:-) G R O M A C S (-:</span><br style="font-family: courier new,monospace;"><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> Green Red Orange Magenta Azure Cyan Skyblue</span><br style="font-family: courier new,monospace;">
<br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> :-) VERSION 3.3.3 (-:</span><br style="font-family: courier new,monospace;"><br style="font-family: courier new,monospace;">
<br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> Written by David van der Spoel, Erik Lindahl, Berk Hess, and others.</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;"> Copyright (c) 1991-2000, University of Groningen, The Netherlands.</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> Copyright (c) 2001-2008, The GROMACS development team,</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;"> check out <a href="http://www.gromacs.org">http://www.gromacs.org</a> for more information.</span><br style="font-family: courier new,monospace;"><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;"> This program is free software; you can redistribute it and/or</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> modify it under the terms of the GNU General Public License</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;"> as published by the Free Software Foundation; either version 2</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> of the License, or (at your option) any later version.</span><br style="font-family: courier new,monospace;">
<br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> :-) genbox (-:</span><br style="font-family: courier new,monospace;"><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;">Option Filename Type Description</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">------------------------------------------------------------</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;"> -cp protein.gro Input, Opt. Generic structure: gro g96 pdb tpr tpb tpa</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> xml</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;"> -cs spc216.gro Input, Opt., Lib. Generic structure: gro g96 pdb tpr tpb</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> tpa xml</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;"> -ci insert.gro Input, Opt. Generic structure: gro g96 pdb tpr tpb tpa</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> xml</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;"> -o out.gro Output Generic structure: gro g96 pdb xml</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> -p topol.top In/Out, Opt. Topology file</span><br style="font-family: courier new,monospace;">
<br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">Option Type Value Description</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">------------------------------------------------------</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;">-[no]h bool no Print help info and quit</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">-[no]X bool no Use dialog box GUI to edit command line options</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;">-nice int 19 Set the nicelevel</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">-box vector 0 0 0 box size</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;">-nmol int 0 no of extra molecules to insert</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">-try int 10 try inserting -nmol*-try times</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;">-seed int 1997 random generator seed</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">-vdwd real 0.105 default vdwaals distance</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;">-shell real 0 thickness of optional water layer around solute</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">-maxsol int 0 maximum number of solvent molecules to add if</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;"> they fit in the box. If zero (default) this is</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;"> ignored</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;">-[no]vel bool no keep velocities from input solute and solvent</span><br style="font-family: courier new,monospace;"><br style="font-family: courier new,monospace;">
<br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">-------------------------------------------------------</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">Program genbox, VERSION 3.3.3</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;">Source code file: ../../../../src/gmxlib/statutil.c, line: 797</span><br style="font-family: courier new,monospace;"><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">Invalid command line argument:</span><br style="font-family: courier new,monospace;">
<span style="font-family: courier new,monospace;">red_tile</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">-------------------------------------------------------</span><br style="font-family: courier new,monospace;">
<br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">"Take Dehydrated Water On Your Desert Trips" (Space Quest III)</span><br style="font-family: courier new,monospace;">
<br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">xform: (standard input): warning - empty file</span><br style="font-family: courier new,monospace;"><span style="font-family: courier new,monospace;">xform: (!genbox red_tile tile_a 1 1 .1 -b .025 | xform -t 0 0 -.1): warning - empty file</span></font><br style="font-family: courier new,monospace;">
<br><br>Could you walk me through what to do, in order to get Radiance's !genbox working, instead of, what I'm assuming, is another program for who-knows-what?<br><br>Thank you!<br>Nick<br><br><pre><br>Lars O. Grobe wrote:<br>
><i> <br></i>>><i> Has this command changed too? (such as rview to rvu)<br></i>><i> <br></i>><i> On Linux systems, there already exists a command genbox. So the package<br></i>><i> maintainers (I guess you use a debian or ubuntu setup?) have to rename<br>
</i>><i> these tools (I would guess to rgenbox, rgenprism) to avoid<br></i>><i> unpredicteable behaviour. The source tree at radsite/radiance-online<br></i>><i> doesn't reflect these changes, the documentation doesn't do it neither.<br>
</i><br>On Debian and Ubuntu these changes are documented in<br>/usr/share/doc/radiance/README.Debian<br>There's also described how to modify $PATH to get the old function back.<br><br><br>Cheers,<br><br>Bernd<br><br>
-- <br> Bernd Zeimetz Debian GNU/Linux Developer<br> GPG Fingerprint: 06C8 C9A2 EAAD E37E 5B2C BE93 067A AD04 C93B FF79</pre>
<br></div>