Sorry for the confusion - didn't mean I'd used a wildcard when typing the commands ... just meant I get that response for both commands.
They're an add on created from a the Molecular BioMechanics group (http://projects.eml.org/mbm/website/fda_gromacs.htm) - I've downloaded they're software as they mention: Installing the FDAtools package: FDAtools depends on bio3d and SparsM. Please download the bio3d package. A a Mac / Linux user, check that your R_LIBS variable points to the folder in which packages should be installed (insert an export R_LIBS="..." in your .profile / .bashrc if not previously done). Install bio3d by executing 'R CMD INSTALL bio3d_1.0-6.tar.gz'. Install SparseM by executing 'install.packages("SparseM")' in an R console. Now we are ready to install FDAtools, just type 'R CMD INSTALL FDAtools_0.9.tar.gz' on the command line. And downloaded the 'gromacs_4.0.5_pf' that they have (FDA-Gromacs). Is it likely to be some problem with the FDA-Gromacs package installation (the one I mentioned below) ... or is it likely to be something else? Thanks Natalie ________________________________________ From: gmx-users-boun...@gromacs.org [gmx-users-boun...@gromacs.org] on behalf of Justin A. Lemkul [jalem...@vt.edu] Sent: 16 May 2011 15:56 To: Discussion list for GROMACS users Subject: Re: [gmx-users] "Command Not Found" Natalie Stephenson wrote: > Hi All, > > Sorry to bug you all about this - it's been mentioned a few times but I > can't find an answer that seems to relate to the situation I've got. > > I'm trying to use the g_fdaconv / g_fdatools within gromacs 4.0.5, > however, everytime I type the commands I get 'g_fda*: command not found'. > Using wildcards will not find command names. > These are present in the /usr/local/gromacs/bin directory - however when > I've checked over the config.log they haven't installed. I'm not sure I OK, so you have an executable installed, but it didn't install? Can you please clarify? Neither g_fdaconv or g_fdatools are standard Gromacs utilities - are they some sort of external package or add-on? -Justin > understand what's happened - the installation was done by downloading > followed by ./configure, make, make install, and everything else seems > to be functioning fine. What is it I've missed? > > Can anyone shed any light on my (probably completely stupid) problem?! > > Thanks loads, > Natalie > > ------------------------------------------------ > Natalie Stephenson, B.Sc > PhD Research Associate > > Manchester Interdisciplinary Biocentre > 131 Princess Street > Manchester > M1 7DN > x65816 > ------------------------------------------------ > -- ======================================== Justin A. Lemkul Ph.D. Candidate ICTAS Doctoral Scholar MILES-IGERT Trainee Department of Biochemistry Virginia Tech Blacksburg, VA jalemkul[at]vt.edu | (540) 231-9080 http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin ======================================== -- gmx-users mailing list gmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/Support/Mailing_Lists -- gmx-users mailing list gmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/Support/Mailing_Lists