Hello, I am using qiime 2 (version 2021.4) in Virtual box and have been following the tutorials in RESCRIPt ( Processing, filtering, and evaluating the SILVA database (and other reference sequence data) with RESCRIPt ) to create a classifier for my 16S dataset. Unfortunately, whether I go through th…

Hi @bkramer , A few questions: [image] bkramer: I am using qiime 2 (version 2021.4) in Virtual box and have been following the tutorials in RESCRIPt How much RAM is your virtual box set up to use? Have you allocated sufficient RAM? [image] bkramer: my computer suffers a memory error and…

Hi @SoilRotifer , Thank you for responding so quickly. I've allocated as much RAM to 2021.4 as our computer will allow me (30.3 GB), and nothing else aside from Virtualbox and Qiime are open, which is why I'm thinking this problem might be specific only to me, but as I said, these settings were suf…

I don't think its specific only to you - for reference, when we re-train the feature classifiers for new QIIME 2 releases, we have to use 64 GB of RAM on our HPC, using the default "chunk size" setting of 20,000. 30 GB seems insufficient to me to get the job done, esp if you're observing a memory er…

Thank you for clarifying. 64 GB of RAM seems like something not a lot of people have (at least my advisor's lab doesn't). At the very least that should be made clear on the tutorial how much RAM you need for this process, especially if it's the only way you can get the latest Silva databases, and th…

[image] bkramer: At the very least that should be made clear on the tutorial how much RAM you need for this process The RAM requirements are entirely dependent on the reference database you are using to generate the classifier with (and to complicate matters, any trimming/extraction will impa…

[image] bkramer: but I'll stick with the former option for now If you're using the 515f-806r primers (and judging by your first post, it sounds like you are), then using a pre-trained classifier will be identical to training your own, assuming you weren't applying some kind of intermediate fi…

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Memory error creating classifier using RESCRIPt and Silva 138

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feature-classifier, rescript

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