update/remove some tests from applications/test

applications/test/getRoots/Make/files

applications/test/getRoots/Make/options

applications/test/getRoots/getRoots.C

applications/test/hmm/Make/files

applications/test/hmm/Make/options

applications/test/hmm/calcEntry/calcEntry.C

applications/test/hmm/calcEntry/calcEntry.H

applications/test/hmm/dictionaryTest.C

applications/test/hmm/testDict

applications/test/hmm/testDictInc

applications/test/hmm/value

applications/test/router/Gather/Gather.C