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?
Yes > 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 Thanks > >>>> >>>> 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 ___________________________________________________________ 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/
