Hi Peter,

After installing the clc testing galaxy wrapper I noticed there are still some static paths in the wrapper. I'm in favor of expecting binaries in the system path, but maybe that's a matter of taste.

Greets,

Eric Kuijt

On 30 October 2013 17:03, Peter Cock p.j.a.cock@googlemail.com wrote:

Hello all,

This is just to announce I am working on a wrapper for "CLC Assembly Cell" which is the CLCbio commercial command line assembly tool suite. http://www.clcbio.com/products/clc-assembly-cell/

Our institute bought a licence primarily for use on plant genomes where other assemblers at the time required too much RAM to complete. This assembler is both fast and low memory, which can be very useful.

Wrapper development here: https://github.com/peterjc/pico_galaxy/tree/master/tools/clc_assembly_cell

Prototype releases will be on the Test Tool Shed (soon): http://testtoolshed.g2.bx.psu.edu/view/peterjc/clc_assembly_cell

Stable Tool Shed releases will be here (later): http://toolshed.g2.bx.psu.edu/view/peterjc/clc_assembly_cell

I would be interested to hear from anyone else with access to a licensed copy of the tool interested in using it from Galaxy. e.g. Is it reasonable to assume the tools are on the $PATH, or is using a specific environment variable more helpful?

Regards,

Peter ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/

To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/