Question: Error running blastn on Linux: Critical [blastn] External MBEDTLS version mismatch: 2.16.2 headers vs. 2.16.3 runtime
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2jackcummins • 0 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
Are you using pre-compiled version of blast? Did you get it from NCBI?
I got blast using these instructions https://ngsprimer.wordpress.com/.
Install the latest blast+ binary and see if that works.
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+
Wait, I was able to download the newest blast+. I will keep you updated on whether it works.
It's working! Thank you so much!