fixed small bug of throwing warning when clade tree is not given.
now using Bioperl's sequences to align, because Bio::Phylo's matrix
objects sometimes made trouble in threaded mode (no display_id). Changed
parallel library to Parallel::parallel_map
added examl parameter 'p' for random seed
fixed small bug in RaXML inference: Now returning newick tree as file.
Abandoning ParallelService. Now using Parallel::parallel_map from cpan,
which provides an easy-to-use map function for parallel processing via
threads. Performance seems very good.