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Computer Requirement PROSPECT can basically run on any platform with the Unix or Linux
operating system and a C compiler. It has been tested on Silicon Graphics,
Sun, DEC, MacOSX, and Linux PC (Not all of these are included in the
distribution, if you need prospect for another UNIX platform, let us know).
InstallationPlease use the following steps to install PROSPECT:
Enviromental varibles to setThese are the eviromental that must be set in order to allow prospect to run correctly.If you are using a C shell, the command would be something like setenv PROSPECT_PATH /usr/local/prospect If you are using BASH, the command would be something like: export PROSPECT_PATH=/usr/local/prospect Basic Run:PROSPECT_PATH 3D Protein Structure Creation:PDB_PATH Template Creation:MAKEMAT_EXE Other Toolslibxml2 (Required)In order for prospect to work correctly you will need to make sure that libxml2 is installed. This should be already done in most modern Unixes. If not, visit http://www.libxml.org download and install the software.BlastPGP (Required)You can find the source and executables for BlastPGP at ftp://ftp.ncbi.nih.gov/blast/The NR database can be downloaded at ftp://ftp.ncbi.nih.gov/blast/db/nr.Z Perl (Optional various scripts)This should be a standard part of most modern Unix systemsPerl/Tk (Optional for GUI interface)The script prospect_modeller.pl uses Perl/Tk to create the GUI interface. You can find it at http://www.perltk.org/Rasmol (Optional for viewing 3D structures)You can get a copy at http://www.openrasmol.org/modeller (Optional for creating 3D structure)Prospect is simply an alignment program. In order to produce
actual 3D models, you will need a copy of the software 'Modeller' found
at http://guitar.rockefeller.edu/modeller/modeller.html dssp (Optional for template creation)DSSP is a program to assign secondary structure classifications to known structures in PDB format. The make_template uses it to create data needed for the template. You can find it at http://www.cmbi.kun.nl/gv/dssp/ |
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