comparison README.txt @ 3:42e85c24570f

updates to README

2:d95513e50c92

Motivation: Simple transformation, filtering or reporting scripts get written, run and lost every day in most busy labs - even ours where Galaxy is in use. This 'dark script matter' runs outside Galaxy and without manual effort to curate is often not reproducable.

 After a lot of nagging about how hard it was to create new wrappers for trivial scripts, I wrote a new Galaxy tool (see the source tab) locked down to allow only two other trusted bioinformatician users to paste and run (NO sandbox!) arbitrary scripts - see screenshot attached. Note that this tool allows unrestricted access as user Galaxy so should be restricted to admin users who could run rm -rf from a command line if they wanted to but can be trusted not to! 

For our group, this allows Galaxy to fill that important gap - all those "small" bioinformatics tasks - because once a trusted user has a working R (or python or perl) script that takes parameters the way Galaxy supplies them (see example below), they: 

1) run the new tool

3:42e85c24570f

After a lot of nagging about how hard it was to create new wrappers for trivial scripts, I wrote a new Galaxy tool (see the source tab) locked down to allow only two other trusted bioinformatician users to paste and run (NO sandbox!) arbitrary scripts - see screenshot attached. Note that this tool allows unrestricted access as user Galaxy so should be restricted to admin users who could run rm -rf from a command line if they wanted to but can be trusted not to! 

For our group, this allows Galaxy to fill that important gap - all those "small" bioinformatics tasks - because once a trusted user has a working R (or python or perl) script that takes parameters the way Galaxy supplies them (see example below), they: 

1) run the new tool