BLAST database error while using HiFiAdapterfilt to filter out adapter contaminants from PacBio raw reads

I am trying to find if there are any adapter contaminants in SRR11292123 (NCBI SRA), but it is giving out a BLAST database error:

BLAST Database error: Database memory map file error

blast pacbio ncbi assembly genome

• 509 views • link

updated 10 months ago by Kevin Blighe 9.0K • | written 10 months ago by pranavdatar01 1

0 answers

No answers yet.

More posts like this

Hifiasm is getting killed while trying to assemble a genome
written 1.0 years ago by pranavdatar01 1

I am trying to assemble a genome (90x coverage, mean read quality: 30). The system on which I am working has 128 memory threads and …
Basic question but how can I search the NCBI Nucleotide database using BLAST CLI
written 1.9 years ago by Mark 6

I'm trying to run a BLAST through the `blastn` cli. I thought that providing `nt` as the `-db` parameter would let me search the NCBI …
Problems setting up nt blast database
written 6.0 years ago by goatsrunfaster 6

I am pulling my hair out trying to simply set up blast on my university server system. I downloaded all 36 of the packaged nt …
blast+ 2.10.1+ Failed to create a database
written 6.3 years ago by ievainis 0

I am very new to blast+. I tried to create a database from my own sequences (not downloading existing databases). The sequences are genomes. I …
Blast an organism against a downloaded database
written 7.0 years ago by caro-ca 2

Hi, Biostar community! I am trying to do a blastn with my genome assembled on Linux against an organism that only has one public assembled …
Command line BLAST
written 8.6 years ago by shrinivas.mchavan 0

I installed command line BLAST and then added pre-formatted database from NCBI. now i am trying to validate it. When I extract a entry from …
Using NCBI database in DIAMOND BLAST
written 9.2 years ago by glady 32

I want to use NCBI protein(nr) database in DIAMOND BLAST. But it is always giving some database extension format error. The commands for standalone BLAST …
do blast search using gi numbers
written 9.2 years ago by bitpir 27

Hi, I'm trying to do an rpsblast using ncbi-blast-2.5.0+. I have a file containing gi numbers as my query and my command line is below. …
Blastdbcmd command is failing to give sequences.
written 11.3 years ago by Prasad 5

Hello all, I am trying to retrieve sequences from NCBI nr database. Using following command. blastdbcmd -entry 'all' -db Path/to/db -outfmt '%f' -out output.fasta It …
blastn execution error, the correct command line format
written 11.7 years ago by vigneshprbh37 4

So I am trying to test my blast+ standalone program with the following command ./blastn -db /home/Desktop/ncbi-blast-2.2.30+/db/nr -query /home/Downloads/sequence.fasta -out /home/CCMB/Downloads/output/result but every time I …