removing ADAM BMC manuscript, presentation, and poster from repository
remove optimal control as it
has never been fully tested
remove old index.html
remove dvd*.pl files since they are not used in ADAM
minor typo
move indicatorFunc.m2 to lib/M2code
move petri net files in separate folder in test
do not include test results in git repo
rename adam_largeNetwork to analysisByGroebnerBasis.rb
move file
extra folder for sample JSON
move M2 code used for creating benchmarks into separate folder
rename adam_conjunctive to conjunctiveNetwork.rb
remove script that was used on old vhost setup to move files around
remove sim.pl which simulates a trajectory because it is not used anymore
remove samplePDS and Transition table because they are not used
Revert "remove samplePDS and Transition table because they are not used"

This reverts commit c5be14b33aea2b803280d603d48589aed1d27025.
move sample input files to folder
sample input for ginsim file