Example bug report
You would start a separate topic for each bug, please do not post new bugs as a reply to old threads.
This bug report is an example and is already fixed in the current version of MEGAN.
TOPIC TITLE: weight/magnitude of reads is not used in quantification
I am using MEGAN6 Ultimate version 6.0.12alpha on MacOS (10.9.4). As I was using a subset of reads from my WGS metagenomic dataset assigned to one specific gene, I decided to simplify the data and delete all duplicate reads I had. To keep the quantitative information, I added the number of duplicates found to each remaining read.
I attached "magnitude=number" to the header.
Unfortunately, the magnitudes were not used to calculate the number of reads assigned to a node (which was what I expected). I did select the "Use read magnitudes" checkbox when loading my BLAST-XML file. (I only compared against Drosophilaceae, to get the results faster.) I get only the original five reads assigned to the Drosophila taxon, while I should have over 900 "weighted reads".
In the Inspect Window, each of the reads has the correct weight assigned, but this did not influence the analysis.
I attached a fastA-file containing the first five reads to this post, as well as the BLAST-XML and the RMA6 file I generated with them.
SINAweighted.fasta (2.4 KB) SINAweighted-Alignment.xml (564.7 KB) SINAweighted-Alignment.rma6 (32.1 KB)