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v0.5.1
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@iiSeymour iiSeymour released this 11 Feb 16:04
· 362 commits to master since this release
v0.5.1
70e5499

Highlights

  • There is no longer a requirement for a CUDA toolkit on the target system, which significantly improves the ease of installation1.
  • BAM spec 0.0.2 (+move table, numbers of samples, trimming information).

Features

  • 241e622 record the move table into the SAM/BAM.
  • a6a3ed2 ont-koi replaces seqdist + cupy1.

Bugfixes

  • c8417b7 handle datatimes with subsecond resolution.
  • 6f23467 fix the mappy preset.
  • 737d9a2 better management of mappy's memory usage.
  • 2bbd711 remora 0.1.2 - fixes bonito/remora hanging #216.
  • 6e91a9d sensible minimum scaling factor - fixes #209.

Misc

  • Upgrade to the latest Mappy.
  • Python3.6 support dropped (EOL).

Installation

The default version on PyTorch in PyPI supports Volta and below (SM70) and can be installed like so -

$ pip install ont-bonito

For newer GPUs (Turing, Ampere) please use -

$ pip install -f https://download.pytorch.org/whl/torch_stable.html ont-bonito-cuda113
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