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Old 07-26-2016, 04:06 AM   #1
matias_irazoqui
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Location: Rafaela, Argenitna

Join Date: Aug 2012
Posts: 1
Default Parsing a MEGAN file by command line

Hi, I have a quite large RMA file (about 40 GBs), and every time I try to open it, my (poor little) PC freezes. I was wondering if there's a way to parse the RMA file by command line and split it into a few parts more "manageable" (I was thinking one file for 'Bacteria', another for 'Archaea', etc, but it can be in any other way posible).
I have access to a couple of servers (without graphical interface), so I can run big processes.
Thanks!
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Old 08-02-2016, 01:18 PM   #2
cliffbeall
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Location: Ohio

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Default

The manual says rma is a binary compressed format - it didn't seem to be recognized by zip, gzip or bzip2 for me although maybe I was doing something wrong.

The latest MEGAN includes a command-line tool but that requires the full, paid version.

You did increase the memory as far as possible by editing the MEGAN.vmoptions file?
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