On Thu, Aug 1, 2013 at 8:40 AM, Peter Cock <p.j.a.c...@googlemail.com> wrote:
> On Thu, Aug 1, 2013 at 1:41 PM, Rodolfo Aramayo <raram...@tamu.edu> wrote:
>> On Thu, Aug 1, 2013 at 6:49 AM, Peter Cock <p.j.a.c...@googlemail.com> wrote:
>>> On Thu, Aug 1, 2013 at 12:38 PM, Rodolfo Aramayo <raram...@tamu.edu> wrote:
>>>> People,
>>>> I successfully installed NCBI_Blast_Plus from the toolshed
>>>> The tool, however, failed to work giving the following error:
>>>> Fatal error: Exit code 255 ()
>>>> Error: NCBI C++ Exception:
>>>> "/usr/local/galaxy/galaxy-dist/database/tmp/tmpwL5OFq/ncbi-blast-2.2.26+-src/c++/src/corelib/ncbiobj.cpp",
>>>> line 689: Critical: ncbi::CObject::ThrowNullPointerException() -
>>>> Attempt to access NULL pointer.
>>> I've seen that kind of error from NCBI BLAST+ before - do you
>>> know which of the BLAST tools was this, and what the query
>>> was?
>> The repo was:
>> repos/devteam/ncbi_blast_plus/9dabbfd73c8a/ncbi_blast_plus
>> The query was:
>> Output from velvetoptimiser
>> /repos/simon-gladman/velvet_optimiser/43c89d82a7d3/velvet_optimiser
> OK, so this was a nucleotide FASTA file from an assembly, right?


> What were you searching with BLAST? e.g. BLASTN against NT,
> BLASTX against NR, etc.

Search was blastn, task megablast of the assembly as query against an
in-house made (and installed into galaxy) of a blastn database for
Chromosomes 1 to 7 of Neurospora crassa
Database was produced with:
makeblastdb -in Ncrassa_wt_Chr01.Chr07_v12 -dbtype nucl -title
Ncrassa_wt_Chr01.Chr07_v12 -parse_seqids -hash_index
and "installed" into the "blastdb.loc" file as required


>>>> How can I totally uninstall and re-install this tool?
>>>> Thanks
>>> You seem to have found a bug in the Tool Shed, so thank you
>>> for reporting this.
>> You are welcome
>> But any ideas on how to properly uninstall and re-install the tool??
> Hopefully Greg from the Galaxy team will be able to help with this.
> Peter
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