Question: Error running blastn on Linux: Critical [blastn] External MBEDTLS version mismatch: 2.16.2 headers vs. 2.16.3 runtime
0
gravatar for 2jackcummins
3 months ago by
2jackcummins0 wrote:

I am running blastn (blast+) version 2.9.0 on Ubuntu. My command is this blastn -task megablast -db nt -query blast.fasta -out blast_results.tsv -evalue 0.001 -outfmt "6 qseqid sseqid pident qstart qend sstart send evalue qlen slen staxids sscinames scommnames sblastnames sskingdoms" -remote. When I run this I get the error "Critical [blastn] External MBEDTLS version mismatch: 2.16.2 headers vs. 2.16.3 runtime" Can anybody help? Thanks, Jack

alignment software error • 307 views
ADD COMMENTlink written 3 months ago by 2jackcummins0
1

Are you using pre-compiled version of blast? Did you get it from NCBI?

ADD REPLYlink written 3 months ago by GenoMax94k

I got blast using these instructions https://ngsprimer.wordpress.com/.

ADD REPLYlink written 3 months ago by 2jackcummins0
1

Install the latest blast+ binary and see if that works.

ADD REPLYlink written 3 months ago by GenoMax94k

I couldn't download the latest blast binary. I got this error:

Selecting previously unselected package ncbi-blast. (Reading database ... 39918 files and directories currently installed.) Preparing to unpack ncbi-blast_2.10.1+-2_amd64.deb ... Unpacking ncbi-blast (2.10.1+-2) ... dpkg: error processing archive ncbi-blast_2.10.1+-2_amd64.deb (--install): trying to overwrite '/usr/bin/blast_formatter', which is also in package ncbi-blast+ 2.9.0-2 dpkg-deb: error: paste subprocess was killed by signal (Broken pipe) Errors were encountered while processing: ncbi-blast_2.10.1+-2_amd64.deb Unable to install at /usr/share/perl5/Alien/Package/Deb.pm line 97, <getperms> line 24. find ncbi-blast-2.10.1+ -type d -exec chmod 755 {} ; rm -rf ncbi-blast-2.10.1+

ADD REPLYlink written 3 months ago by 2jackcummins0

Wait, I was able to download the newest blast+. I will keep you updated on whether it works.

ADD REPLYlink modified 3 months ago • written 3 months ago by 2jackcummins0

It's working! Thank you so much!

ADD REPLYlink written 3 months ago by 2jackcummins0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1574 users visited in the last hour
_