relax SVN archive

Added a system test script for testing the relative stereochemistry analysis.

Shifted all the N-state model scripts into their directory.

Created a directory for collecting all N-state model system test scripts together.

Added the phthalic acid RDC data aligned in a PAN gel.

Added a few Gromacs QM/MM snapshots.

This will be used for a stereochemistry analysis system test.

The Grace plots are now being created.

The sorted results files were not been checked for in the results directory.

STDOUT is now being restored after each stage.

STDOUT was being lost if logging was turned on!

The stereochem_analysis auto-analysis is now placing all generated files into the desired results dir.

The cwd is used if no results_dir arg is given.

A results directory can now be specified in the stereochem_analysis auto-analysis.

This is not being used yet.