Fixed first job bug and added Email

* added new function that replaces occurrences of a defined set of parameters
  (required to handle brackets inside filenames)
* using glob_and_escape in Snakefile now

Update to documentation

Documentation

Merge branch 'master' of https://github.com/mpicbg-scicomp/snakemake-workflows into mpicbg-scicomp-master

New improved workflow

Improved workflow, am working on the 1st job bug.

Pipeline tested and works with single channel data

the output rule now references to the correct xml filename

Log files are ordered

hdf5_xml_output rule does again touch the output
Tested and works

Update to newest master

Newswitches

fusion takes to long with blending and full resolution

Update master to newest version

Dualchannel ... sorry that it took so long

compute_on is not present in Snakefile

compute_on, directory_cuda and cudafourierconvolution System.getProperty
now correct