Added mimp finder from old repo
Modified parralel_signalp.sh to no longer submit multiple jobs to the SGE but to make parrallel subscripts which can be run on a single node of the cluster. This means the rxlr pipe can be run on a node and does not clog up the cluster's head node while the pipe is running.
changed $SCRIPT_DIR to now point to the git repository in armita
Changed path to scripts folder
Modified path to scripts directory
removed qsub commands from beginning of file
Script to run rxlr prediction pipeline and mimp prediction pipeline on given genomic contigs.
Changed permissions
Modified to run in qsub on a node with 16 processors and at least 1GB of RAM
Will reseve 16 processors on a node. Each processor will have 0.9Gb of RAM. The job will parrellise signalP 16 times.
Will reseve 16 processors on a node. Each processor will have 0.9Gb of RAM. The job will parrellise signalP 16 times.
Merge branch 'master' of https://github.com/eastmallingresearch/pathogen
Creates output file. Attempted correct on parallelised loop.
Merge branch 'master' of github.com:eastmallingresearch/pathogen

Conflicts:
	path_pipe.sh
	rxlr/parallel_signalp.sh
Corrected merge
Modified to copy infiles to tempory directory and work on files from there.
Corrected errors in file submission
Corrected inputs from @ARGV
Made a branch for outputs
Branch for output