split out references from readme

Author: scytacki

developer-doc/references.md

@@ -0,0 +1,44 @@
+# References
+
+## Molecular Simulation
+
+- [Basic molecular dynamics](http://li.mit.edu/Archive/Papers/05/Li05-2.8.pdf)
+- [CHARMM: A theoretical introduction to molecular dynamics simulations and practical examples](http://www.ch.embnet.org/MD_tutorial/)
+
+  This site has a basic introduction to the physics of molecular dynamics simulations, and practical
+  exercises with the CHARMM package
+
+- [Thermostat Algorithms for Molecular Dynamics Simulations](http://phjoan23.technion.ac.il/~phr76ja/thermostats.pdf)
+- [the "flying ice cube"](http://en.wikipedia.org/wiki/Flying_ice_cube)
+
+  One kind of unphysical effect that can arise. See linked paper.
+
+- [SklogWiki: Lennard-Jones](http://www.sklogwiki.org/SklogWiki/index.php/Lennard-Jones_model)
+
+### Courses
+
+- [CHE 800-002: Molecular Simulation](http://www.pages.drexel.edu/~cfa22/msim/msim.html)
+    Cameron Abrams Department of Chemical Engineering at Drexel
+
+- [Computational Physics](http://courses.theophys.kth.se/SI2530/)
+- [Benchmark results for Lennard-Jones fluid](http://www.cstl.nist.gov/srs/LJ_PURE/index.htm)
+- [Statistical Physics and Simulation](http://homepage.univie.ac.at/franz.vesely/simsp/dx/dx.html)
+
+### Reduced Units
+
+- [softmatter:Simulation Variables/Units](http://matdl.org/matdlwiki/index.php/softmatter:Reduced_units)
+- [An MD Code for the Lennard-Jones Fluid](http://www.pages.drexel.edu/~cfa22/msim/node27.html)
+- [2.4 Reduced Units](http://homepage.univie.ac.at/franz.vesely/simsp/dx/node11.html)
+- [Understanding molecular simulation: from algorithms to applications](http://books.google.com/books?id=XmyO2oRUg0cC&pg=PA41&lpg=PA41&dq=Reduced+Units+Lennard-Jones&source=bl&ots=Zx0F10o1yR&sig=2UJ4C-W8LuASjrvkoTxPA63XBos&hl=en&sa=X&ei=R0AWT7fmNOn10gHKx4jxAg&ved=0CGIQ6AEwBw#v=onepage&q=Reduced%20Units%20Lennard-Jones&f=false)
+- [Molecular Dynamics Simulation: Nneoma Ogbonna](http://users.aims.ac.za/~nneoma/theses/NneomaAimsEssay.pdf)
+
+## Full Screen API
+
+- [JavaScript Full Screen API, Navigation Timing and repeating CSS Gradients](http://peter.sh/2011/01/javascript-full-screen-api-navigation-timing-and-repeating-css-gradients/)
+- [Fullscreen API, enhanced Element Highlighting and progress on Flexbox](http://peter.sh/2011/08/fullscreen-api-enhanced-element-highlighting-and-progress-on-flexbox/)
+- [Native Fullscreen JavaScript API (plus jQuery plugin)](http://johndyer.name/native-fullscreen-javascript-api-plus-jquery-plugin/)
+- [Gecko:FullScreenAPI](https://wiki.mozilla.org/Gecko:FullScreenAPI)
+- [Mozilla full-screen API progress update](http://blog.pearce.org.nz/2011/09/mozilla-full-screen-api-progress-update.html)
+- [fullscreen API coming to browsers near you?](http://ajaxian.com/archives/fullscreen-api-coming-to-browsers-near-you)
+- [Full Screen Demos](http://html5-demos.appspot.com/static/fullscreen.html)
+- [stackoverflow: Chrome Fullscreen API](http://stackoverflow.com/questions/7836204/chrome-fullscreen-api)

readme.md

@@ -1145,49 +1145,8 @@ the mnemonic `as` form of `ratio`:
 
 ## References
 
-### Molecular Simulation
-
-- [Basic molecular dynamics](http://li.mit.edu/Archive/Papers/05/Li05-2.8.pdf)
-- [CHARMM: A theoretical introduction to molecular dynamics simulations and practical examples](http://www.ch.embnet.org/MD_tutorial/)
-
-  This site has a basic introduction to the physics of molecular dynamics simulations, and practical
-  exercises with the CHARMM package
-
-- [Thermostat Algorithms for Molecular Dynamics Simulations](http://phjoan23.technion.ac.il/~phr76ja/thermostats.pdf)
-- [the "flying ice cube"](http://en.wikipedia.org/wiki/Flying_ice_cube)
-
-  One kind of unphysical effect that can arise. See linked paper.
-
-- [SklogWiki: Lennard-Jones](http://www.sklogwiki.org/SklogWiki/index.php/Lennard-Jones_model)
-
-#### Courses
-
-- [CHE 800-002: Molecular Simulation](http://www.pages.drexel.edu/~cfa22/msim/msim.html)
-    Cameron Abrams Department of Chemical Engineering at Drexel
-
-- [Computational Physics](http://courses.theophys.kth.se/SI2530/)
-- [Benchmark results for Lennard-Jones fluid](http://www.cstl.nist.gov/srs/LJ_PURE/index.htm)
-- [Statistical Physics and Simulation](http://homepage.univie.ac.at/franz.vesely/simsp/dx/dx.html)
-
-#### Reduced Units
-
-- [softmatter:Simulation Variables/Units](http://matdl.org/matdlwiki/index.php/softmatter:Reduced_units)
-- [An MD Code for the Lennard-Jones Fluid](http://www.pages.drexel.edu/~cfa22/msim/node27.html)
-- [2.4 Reduced Units](http://homepage.univie.ac.at/franz.vesely/simsp/dx/node11.html)
-- [Understanding molecular simulation: from algorithms to applications](http://books.google.com/books?id=XmyO2oRUg0cC&pg=PA41&lpg=PA41&dq=Reduced+Units+Lennard-Jones&source=bl&ots=Zx0F10o1yR&sig=2UJ4C-W8LuASjrvkoTxPA63XBos&hl=en&sa=X&ei=R0AWT7fmNOn10gHKx4jxAg&ved=0CGIQ6AEwBw#v=onepage&q=Reduced%20Units%20Lennard-Jones&f=false)
-- [Molecular Dynamics Simulation: Nneoma Ogbonna](http://users.aims.ac.za/~nneoma/theses/NneomaAimsEssay.pdf)
+[References](developer-doc/references.md)
 
 ## Dependencies
 
 [Dependencies](developer-doc/dependencies.md)
-
-### Full Screen API
-
-- [JavaScript Full Screen API, Navigation Timing and repeating CSS Gradients](http://peter.sh/2011/01/javascript-full-screen-api-navigation-timing-and-repeating-css-gradients/)
-- [Fullscreen API, enhanced Element Highlighting and progress on Flexbox](http://peter.sh/2011/08/fullscreen-api-enhanced-element-highlighting-and-progress-on-flexbox/)
-- [Native Fullscreen JavaScript API (plus jQuery plugin)](http://johndyer.name/native-fullscreen-javascript-api-plus-jquery-plugin/)
-- [Gecko:FullScreenAPI](https://wiki.mozilla.org/Gecko:FullScreenAPI)
-- [Mozilla full-screen API progress update](http://blog.pearce.org.nz/2011/09/mozilla-full-screen-api-progress-update.html)
-- [fullscreen API coming to browsers near you?](http://ajaxian.com/archives/fullscreen-api-coming-to-browsers-near-you)
-- [Full Screen Demos](http://html5-demos.appspot.com/static/fullscreen.html)
-- [stackoverflow: Chrome Fullscreen API](http://stackoverflow.com/questions/7836204/chrome-fullscreen-api)