I am trying to import BlastXML output into MEGAN (6.5.10) that were obtained running BLASTp with DIAMOND, but it seems to fail. The error call indicates that MEGAN cannot recognize the input file format (XML) despite being listed among the usable formats for this software. It does, however, recognize it when the same file was saved as DAA format. What puzzles me the most is that sometimes it worked when importing BlastXML from other similar files into MEGAN6. It seems like this issue happened at random...
My input are FASTA files from metagenomics sequencing with Illumina MiSeq (samples for blastp were previously demultiplexed, assembled, and quality-checked).
Here is an example of my typical XML file:
Benjamin Buchfink, Xie Chao, and Daniel Huson (2015), "Fast and sensitive protein alignment using DIAMOND", Nature Methods 12:59-60.
Please, any advice on this topic would be greatly appreciated!