On Thu, Nov 28, 2013 at 5:13 PM, Peter Cock <p.j.a.cock@googlemail.com> wrote:
Hello all,
FAO: Administrators of local Galaxy instances using the NCBI BLAST+ wrappers.
Over on the galaxy_blast repository I have been updating the NCBI BLAST+ wrappers (including unit tests) to work with the current release, NCBI BLAST+ 2.2.28 (aka BLAST 2.2.28+): https://github.com/peterjc/galaxy_blast
The initial set of changes is now on the Test Tool Shed, http://testtoolshed.g2.bx.psu.edu/view/peterjc/ncbi_blast_plus
This includes a workaround for a known regression in the makeblastdb tool dealing with duplicated identifiers: https://github.com/peterjc/galaxy_blast/commit/349e31c6cec4429c5523fde5975e2...
For the record, this wasn't actually a regression, rather an old "bug" or corner case I'd not noticed before - BLAST+ lets you create databases with duplicate identifiers, which can give very confusing output: http://blastedbio.blogspot.co.uk/2013/12/blast-should-keep-its-blordid.html
In terms of end-user features, the big improvement in the BLAST+ 2.2.28 release was the ability to get the BLAST match descriptions in the tabular output, and other fields: http://blastedbio.blogspot.co.uk/2012/05/blast-tabular-missing-descriptions....
...
This update is already on the main Galaxy Tool Shed, and we've been running it locally without any problems. Regards, Peter