Open simonbrd opened 2 years ago
@simonbrd you have set --device cpu
not the GPU in your screenshot.
Yes it's true sorry... But I still have an error with the GPUs
The default batch size for the fast model is 1536 and uses about ~10GB of GPU memory so try reducing the batchsize to fit your GPU memory capacity bonito basecaller dna_r10.4_e8.1_fast@v3.4 --batchsize 512 ...
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thank you very much it works !
Hello, I have a new problem can you help me?
for info i had this before :
bonito basecaller dna_r10.4_e8.1_fast@v3.4 --batchsize 200 --reference ../PrymneGenomeV1.fasta ../fast5/ --device cuda:0 > data/train/basecalls_sans_ctc.bam
@simonbrd to save data in a training format you need to add --save-ctc
when basecalling, the error message you are getting is because not training data is present in data/train
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Ok thank you. But I don't understand because in the basecaller results I only have 2 files but no training data for the bonito train ?
Hello, I have a problem regarding using bonito to build my own methylation detection model on microalgae data. I do the following workflow :
thank you in advance For info here is my configuration :