Issues

• implement batching algorithm in Rust

  UC-Davis-molecular-computing/ppsim#42 · Filter by author dave-doty opened on Dec 17, 2024
  

• ppsim no longer works on Google Colab

  bug
  UC-Davis-molecular-computing/ppsim#41 · Filter by author EricESeverson opened on Feb 3, 2023
  1

• add configurable timeout when enumerating states

  enhancement
  UC-Davis-molecular-computing/ppsim#39 · Filter by author dave-doty opened on Dec 10, 2021

• detect if user specifies parameters in Simulation constructor and do not override if so

  enhancement
  UC-Davis-molecular-computing/ppsim#37 · Filter by author dave-doty opened on Dec 10, 2021

• give more useful error message when initial configuration contains invalid states

  enhancement
  UC-Davis-molecular-computing/ppsim#36 · Filter by author dave-doty opened on Dec 9, 2021

• Declare build dependency on Cython using pyproject.toml

  bug
  UC-Davis-molecular-computing/ppsim#35 · Filter by author mkoeppe opened on Dec 5, 2021
  7

• add pandas and numpy lower bound to requirements.txt

  bug
  UC-Davis-molecular-computing/ppsim#34 · Filter by author dave-doty opened on Oct 4, 2021
  1

• add example to README with transition probabilities

  documentation
  UC-Davis-molecular-computing/ppsim#33 · Filter by author dave-doty opened on Oct 4, 2021
  2

• Import a CRN encoded in SBML format

  enhancement
  UC-Davis-molecular-computing/ppsim#32 · Filter by author EricESeverson opened on Sep 23, 2021

• add link to API in README

  documentation
  UC-Davis-molecular-computing/ppsim#31 · Filter by author dave-doty opened on Sep 3, 2021

• add link to paper at top of README

  documentation
  UC-Davis-molecular-computing/ppsim#30 · Filter by author dave-doty opened on Sep 3, 2021

• Use Strings internally instead of Specie objects

  enhancement
  UC-Davis-molecular-computing/ppsim#29 · Filter by author EricESeverson opened on Jul 22, 2021

• clean up type references in docstrings

  documentation
  UC-Davis-molecular-computing/ppsim#24 · Filter by author dave-doty opened on Jun 8, 2021
  1

• Instantiation of Simulation with a function is needlessly slow

  UC-Davis-molecular-computing/ppsim#17 · Filter by author EricESeverson opened on Jun 2, 2021

• add controllable random number seed for reproducible results

  enhancement
  UC-Davis-molecular-computing/ppsim#16 · Filter by author dave-doty opened on May 9, 2021
  1

• support importing common CRN specification formats

  enhancement
  UC-Davis-molecular-computing/ppsim#14 · Filter by author dave-doty opened on May 6, 2021

• feature request: simulate large-state-count protocols

  enhancement
  UC-Davis-molecular-computing/ppsim#4 · Filter by author dave-doty opened on Apr 22, 2021
  1

• make GitHub action for testing compiling API documentation

  enhancement
  UC-Davis-molecular-computing/ppsim#2 · Filter by author dave-doty opened on Apr 18, 2021

• make GitHub action for publishing Python package automatically to PyPI

  enhancement
  UC-Davis-molecular-computing/ppsim#1 · Filter by author dave-doty opened on Apr 18, 2021
  1