Hopsy

- [171](https://jugit.fz-juelich.de/IBG0/ModSim/hopsy/-/issues/171): Make mcbackend optional dependency

- [132](https://jugit.fz-juelich.de/IBG0/ModSim/hopsy/-/issues/132): Add support for Python 3.13
- [154](https://jugit.fz-juelich.de/IBG0/ModSim/hopsy/-/issues/154): Add support for numpy 2.0 and newer

- [169](https://jugit.fz-juelich.de/IBG0/ModSim/hopsy/-/issues/169): Move RandomNumberGenerator to hops (backend)
- [168](https://jugit.fz-juelich.de/IBG0/ModSim/hopsy/-/issues/168): Add warning to help users avoid unintended constraint violations
- [167](https://jugit.fz-juelich.de/IBG0/ModSim/hopsy/-/issues/167): Fix example code for GEM sampling
- [166](https://jugit.fz-juelich.de/IBG0/ModSim/hopsy/-/issues/166): Add `simplify` kwarg to `hopsy.round`
- [165](https://jugit.fz-juelich.de/IBG0/ModSim/hopsy/-/issues/165): Treat thinning=0 as no thinning instead of producing NaNs
- [162](https://jugit.fz-juelich.de/IBG0/ModSim/hopsy/-/issues/162): Fix sign error in python implementation of parallel tempering
- [161](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/161): Persist markov chain proposal after parallel sampling

- [115](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/115): Improve initialization of custom PyProposals in MarkovChain
- [114](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/114): Disable inheriting from PyProposal and PyModel

- [138](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/138): Ignore fixed dimensions when computing ESS & rhat
- [157](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/157): Pin numpy<2.0
- [141](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/141): Add minimal example for genome-scale sampling
- [152](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/152): Add test-case for selecting start point with equality constraints
- [69](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/69): Add CLA
- [155](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/155): Increase numerical accuracy for parallel tempering when using python multiprocessing
- [153](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/153): Add tuning target selection to setup function

- [145](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/145): Improve docs
- [127](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/127): Add method to heuristically setup good sampling configurations depending on the problem
- [139](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/139): Add transformation of start points during add\_equality\_constraints
- [88](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/88): Fix parallelization for sampling with mcbackend as sample storage
- [123](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/123): Add parallel tempering support for non-MPI users
- [137](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/137): Fix rare bug for users implementing their own PyProposals for non-uniform sampling
- [136](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/136): Improve numerical stability of mixture models
- [133](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/133): Add default starting point to proposals and markov chains when none is given
- [128](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/128): Add stepsize tuning with Python TuningTargets
- [122](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/122): Fix rounding for Reversible Jump MCMC
- [125](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/125): Update Readme.md & Fix automatic docs generation
- [106](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/106): Add official support for python 3.12
- [130](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/130): Update requirements-dev.txt
- [108](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/108): For development: Fix setup.py warning on missing commit ID
- [119](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/119): Fix numpy deprecation warnings in unit tests
- [121](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/121): Update docs for problem

v.1.4.1
- [120](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/120): Fix parallel sampling with additional equality constraints
- [117](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/117): Update Optlang, sympy and numpy dependencies
- [118](https://jugit.fz-juelich.de/IBG-1/ModSim/hopsy/-/issues/118): Fix back\_transform when manually adding equality constraints and rounding