CPU

[techsavy12]

Hello,
I was following the guideline from the website to run the train_flipflop.py and guppy_basecaller code.
However I only have cpu, so how would I revise the template to run the code. Thx in advance for the help!

Script:
train_flipflop.py --device 0 taiyaki/models/mLstm_cat_mod_flipflop.py modbase.hdf5

guppy_basecaller --input_path /path/to/input_reads --save_path /path/to/save_dir --config dna_r9.4.1_450bps_flipflop.cfg --model path/to/model.json --device cuda:1

[tmassingham-ont]

Hello. For train_flipflop.py, if --device is not given, or --device cpu is used, then training will be performed on the CPU; setting the environment variable OMP_NUM_THREADS to an appropriate value will critical for achieving maximum performance here. We highly recommend using a GPU since the difference in speed is about two orders of magnitude over CPU only.

Queries about Guppy are best addressed to the appropriate forum. I believe a CPU version of guppy is available, and the standard version may be capable of running in CPU only mode.