On Mon, Oct 11, 2010 at 4:06 PM, Peter <peter@maubp.freeserve.co.uk> wrote:
On Tue, Sep 21, 2010 at 4:14 PM, James Taylor <james@jamestaylor.org> wrote:
Peter, this is great and we will look at it. The main thing I want to think about is does this affect reproducibility in any way. We may want to keep the old tool, and have another tool for the NCBI version (I'd love to see a complete set of wrappers for NCBI blast+, which we could include with our cloud images right away). Thanks!
-- jt
Hi James et al.
Could you or someone from the Galaxy team take a look at my wrappers for blastn, blastp, blastx, tblastn and tblastx and the BLAST XML to tabular converter for possible inclusion in galaxy-central?
http://bitbucket.org/peterjc/galaxy-central/src/blastplus
The BLAST+ suite is so big and has so many options that this is by no means a "complete set of wrappers" but it covers the immediate core functionality that I expect to need personally.
Thanks,
Peter
P.S. One thing this is lacking is unit tests. I worry that these could be specific to the version of BLAST+ and the version of any database installed. Ultimately the reference platform here is the "official" public Galaxy server, right? Using the -subject feature we can BLAST one file against another which avoids the database version issue. Peter