NECESSARY STEPS FOR TURNING YOUR MAC INTO A SCIENTIFIC COMPUTING PLATFORM

[ ] Fink Unix utilities
    http://www.finkproject.org/
    Fink Commander 
    http://finkcommander.sourceforge.net/                                  

[ ] MacPorts 
    http://svn.macports.org/repository/macports/downloads/MacPorts-1.5.0/

[ ] TeX
    http://ii2.sourceforge.net/tex-index.html
    (first install fink, then fink install tetex latex-beamer)

[ ] TeXshop for LaTeX 
    http://www.uoregon.edu/~koch/texshop/obtaining.html

[ ] Other Editors:
    VI --- (install via fink install vim to get the latest version, or download from http://macvim.org/OSX/index.php)
    Emacs -- (download from http://aquamacs.org/)

[ ] Apple Developer Connection Xcode (necessary collection of software tools)
    http://developer.apple.com/tools/download/

[ ] X11 for Mac Os X
    http://www.apple.com/downloads/macosx/apple/macosx_updates/x11update2006113.html

[ ] R
    http://cran.wustl.edu/sources.html
    (for binaries http://cran.wustl.edu/)
    (or for development versions and tools to allow building of packages http://r.research.att.com/)

[ ] R standalone math libraries
    "The library is not built automatically when R is installed, but can be built 
    in the directory src/nmath/standalone in the R sources: see the file README there."
    in /Users/jgill/Documents/R-2.4.1/src/nmath/standalone, type "make install"
 
[ ] JAGS-0.90 
    If you want to compile it yourself on Tiger (requires the R standalone math libraries):
    http://www-fis.iarc.fr/%7Emartyn/software/jags/ and install by:
    ln -s /Library/Frameworks/R.framework/Versions/Current/Resources/include/Rmath.h /usr/local/include/Rmath.h
    ln -s /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libRmath.a /usr/local/lib/libRmath.a
    ln -s /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libRmath.dylib /usr/local/lib/libRmath.dylib
    configure 
    make 
    sudo make install
    
    If you want Mac binaries for version 0.98, which is easier (courtesy of Claudia A. Engel)
    http://www.stanford.edu/~cengel/cgi-bin/anthrospace/jags-binaries

    There is now JAGS 1.0.0, which can be installed on Leopard if you have Xcode installed and R from the binary 
    distribution (along with the gfortran it provides).  Go to http://www-ice.iarc.fr/~martyn/software/jags/.  Type:
    ./configure 
    make 
    make install.  
    The standalone libraries are not required, and you don't need symlink.  

[ ] Realplayer
    http://www.real.com/player

[ ] Open Office
    http://download.openoffice.org/

[ ] Adobe Reader
    http://www.adobe.com/products/acrobat/readstep2.html

[ ] Browsers
    Omniweb: http://www.omnigroup.com/applications/omniweb/
    Firefox: http://www.mozilla.com/en-US/firefox/
    Camino: http://www.caminobrowser.org/

[ ] PDFtoKeynote
    http://www.cs.hmc.edu/~oneill/freesoftware/pdftokeynote.html

[ ] Text to html
    http://sourceforge.net/project/showfiles.php?group_id=36483&package_id=28791&release_id=261701

[ ] To Add Nice Equations and Tables to Keynote Presentations
    http://www.apple.com/downloads/macosx/math_science/latexit.html

[ ] Miscellaneous General Advice Sites:
    http://www.apple.com/downloads/macosx/math_science/
    http://hitoshi.berkeley.edu/macosx/
    http://darwinports.opendarwin.org/ports/?by=cat&substr=science
    http://www.macresearch.org/

[ ] For Nice Mac Fonts in LaTeX (XeTeX)
    http://scripts.sil.org/cms/scripts/page.php?site_id=nrsi&id=xetex
    (install with fink install xetex)

[ ] Some Additional Tools:
    BibDesk, http://bibdesk.sourceforge.net/                                                
    Desktop Manager, http://desktopmanager.berlios.de/
    Gimp, http://www.gimp.org/
    Quicksilver, http://en.wikipedia.org/wiki/Quicksilver_(software)                        
    CyberDuck, http://cyberduck.ch/                                                         
    Combine PDFs, http://www.monkeybreadsoftware.de/Freeware/CombinePDFs.shtml
    Poisoned, http://gottsilla.net/about.php