Deepsignal-plant

bug fixes

enable .gz output in extract/call_mods/call_freq modules

multi-gpu support in call_mods module

update requirements/dependences

make sure results of each read be written together in call_mods' output

make `--reference_path` not a required input in *extract* and *call_mods* module

modify *call_freq* module for large genomes,

fix bug of extrating contig name from fast5s

add ranger optimizer and modify train module,

fix Queue.qsize() NotImplementedError in macOS partially, however call_mods in CUDA mode in macOS still doesn't work,

add `init_model` option in train module

0.1.2-z
Create a release for Zenodo, no important improvements.

change imports in ref_reader,

change requirements,

fix and modify denoise module,

fix MKL_THREADING_LAYER error temporarily,

add `--region` option,

a combined 5mC model replacing CG/CHG/CHH models

- fix bug and optimize call_mods without GPU
- add `call_freq` funciton