Question: BLAST Database error in TAXAassign
1
gravatar for bzg
2.5 years ago by
bzg40
Brazil
bzg40 wrote:

Dear all,

I am testing TAXAasign and getting the following error:

[esther@localhost testes]$ ~/Softwares/TAXAassign-master/TAXAassign.sh -t 70 -m 60 -a "60,70,80,95,95,97" -f test.fasta
[2017-05-02 17:10:09] TAXAassign v0.4. Copyright (c) 2013 Computational Microbial Genomics Group, University of Glasgow, UK
[2017-05-02 17:10:09] Using  ~/ncbi-blast-2.6.0+-src/c++/ReleaseMT/bin/blastn
[2017-05-02 17:10:09] Using  ~/Softwares/TAXAassign-master/scripts/blast_concat_taxon.py
[2017-05-02 17:10:09] Using  ~/Softwares/TAXAassign-master/scripts/blast_gen_assignments.pl
[2017-05-02 17:10:09] Blast against NCBI's nt database with minimum percent ident of 60%, maximum of 10 reference sequences, and evalue of 0.0001 in blastn.


BLAST Database error: No alias or index file found for nucleotide database [~ncbi-blast-2.6.0+-src/c++/ReleaseMT/bin/nt] in search path [~/testes::]

I followed all steps here (https://github.com/umerijaz/TAXAassign). When I run update_blastdb.pl nt the tar.gz files are saved at: ncbi-blast-2.6.0+-src/c++/ReleaseMT/bin I created the folder nt inside ncbi/bin and moved the tar.gz files there. I also tried to untar. Not working yet.

Any idea?

Kind regards

taxaassign blast ncbi • 679 views
ADD COMMENTlink modified 2.5 years ago by genomax73k • written 2.5 years ago by bzg40
3
gravatar for genomax
2.5 years ago by
genomax73k
United States
genomax73k wrote:

Have you tried to set BLASTDB variable to the location where the nt files are located?

ADD COMMENTlink written 2.5 years ago by genomax73k

Thanks! That solved the problem.

ADD REPLYlink written 2.5 years ago by bzg40
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