I’m trying to rerun a subset of extracted reads that were BLAST/MEGAN identified with a local database again on the BLASTn website. I exported the output in XML format from web-blast and used that as the input for MEGAN (second image below). I used the megan-nucl-map-Jul2020.db mapping file (which works otherwise for BLAST files generated locally).
While it runs, nothing gets assigned. When I inspect the ‘Not Assigned’ node, it shows that the problem is that it can’t parse the web-blast XML format to grab the taxonomic ID (see the first screen snip below) . Any chance you could add perhaps a web-blast XML specific input format type to get this working?
I’ve attached examples of the XML format and the fasta file with these reads.
Fasta: Bos_extract.fas (36.5 KB)
XML file: https://www.dropbox.com/s/42uvx86dgd323zc/Bos_extract.xml?dl=0
Current rma6 file: https://www.dropbox.com/s/49949axdxsv0kza/Bos_extract-1.rma6?dl=0
Thanks for your help!