max BLAST hits too low about bandage

[rrwick]

I expect it is a BLAST thing, because I just tried the same thing you described and got more than 400 hits per query:

What version of BLAST do you have? A hacky way to find out which one Bandage is using (in case you have multiple versions installed in different places) is to type rubbish into the command line parameters field:

Then when you search, the resulting error message should state the BLAST version.

I'm using 2.2.31+ and it works for me. If you're on an older version, perhaps try upgrading BLAST? If that doesn't work, I'm not sure...

Ryan

[rec3141]

Thanks, I updated BLAST and can't reproduce it

[rec3141]

Ok coming back to this, I'm now on BLAST 2.6.0+ and Bandage 0.8.1 and found the issue cropping up again. Here the same assembly is used as the database. In the first example the query is a full-length bacterial chromosomal sequence, in the second it has been split into records of 10kb each. The coverage of the assembly is much greater in the second instance, and it's not clear why. The files are attached. Any suggestions? Thanks

bandage.zip