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Megan Crashing With Blastn Data

I can not seem to get either the Linux in Ubuntu 32-bit or Windows in Windows 7 64-bit versions of MEGAN to properly load BLASTn data. I continually get an Invalid startClassificationPos=0 Java IOException. I have attempted fiddling with the JAVAOPTIONS environment variables of the 32-bit Java Runtime Environment and have attempted on several distinct data sets.

I am able to run MEGAN on BLASTx test data sets downloaded from their website. Has anyone else had this problem? Or does anyone know someone I could contact who may be able to assist?

Sorry if this isn't the sort of question usually asked here, I wasn't sure what type of response I would get randomly emailing the developers nor could I tell who I should contact.

metagenomics blast
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updated by Lars Juhl Jensen Lars Juhl Jensen • written by Joseph • Joseph

Do you have a small test dataset (blastn output) that replicates this problem? Are you sure your BLAST output has been generated with -m 0 or -m 7?

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updated by Ram Ram • written by User 59 User 59

Make sure the data is in the same format that the program expects. My first guess would also be that your data format is incorrect.

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written by Istvan Albert Istvan Albert

No, there are no example datasets for blastn data though it is officially supported. My BLAST was defaulted to run with -m 0, pairwise, and did not seem to be working so I used -m 7, BLASTXML, and I managed to get results. I haven't actually determined if the results are meaningful yet though. Baby steps. Thanks guys.

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written by Lythimus Lythimus

I will close this question then.

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written by Istvan Albert Istvan Albert

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