Merge pull request #43 from TorHou/master

The changes of this and last week
Create gSpan files from all kind of molecule files, without converting the SDF
Updates for MACS2 to allow better handling of exit codes and to wrap commandline options in quotes (fixes e.g., handling of directories containing spaces).
Merge pull request #44 from blankenberg/master

Updates for MACS2
cleanup dependencies
Merge branch 'master' of https://github.com/bgruening/galaxytools
fix copy and paste error
add a missing import
replace wget with download_file abstraction
update the Infernal references
Merge branch 'master' of https://github.com/bgruening/galaxytools
remove unused readme section
bugfix from Ilya Sytchev
remove unused parameter
change default output format from mol to sdf
insert CML in the description to enable easier searching
fix converting to tabular
increase split size
Add the old bedtools wrappers from Aaron Quinlan. I will take over the wrappers and try to maintain them. Thanks Aaron!
add macro file