[FIX-#803] amino acid specific n-term modifications

If amino acid specific n-term modifications occur in the tsv output, the amino acid must be before the mass, otherwise a parsing error will be thrown.

modified:   ../src/topp/MSGFPlusAdapter.cpp
[FEATURE #803] add parameter setting thread to execute statement of the search engine
[FEATURE #802] Add parameter to define the java param XX:MaxPermSize, needed for conversion to tsv

modified:   ../src/topp/MSGFPlusAdapter.cpp
[FIX,PARAM] use Java memory setting (parameter 'java_memory_size') also for MzIDToTsv tool