Issues

• PARPE_NO_DEBUG env variable does not disable if set to 0 instead of 1

  ICB-DCM/parPE#422 · Filter by author scheney-do opened on Jul 3, 2025
  1

• Use RDataReporting::observables_likelihood for hierarchical optimization

  enhancement
  ICB-DCM/parPE#418 · Filter by author dweindl opened on Feb 18, 2025

• Fix find_package / find_dependency issues with different SuiteSparse versions from amici and ceres

  ICB-DCM/parPE#391 · Filter by author dweindl opened on Oct 14, 2024

• Converting result files to pypesto format

  enhancementPython
  ICB-DCM/parPE#349 · Filter by author dweindl opened on Jul 12, 2021
  

• Make HDF5 output more configurable

  C++enhancement
  ICB-DCM/parPE#348 · Filter by author dweindl opened on Jul 12, 2021

• Implement PEtab/PySB import

  ICB-DCM/parPE#325 · Filter by author dweindl opened on Feb 21, 2021

• gradient check CLI: allow specifying parameter index/ID

  C++enhancement
  ICB-DCM/parPE#319 · Filter by author dweindl opened on Feb 18, 2021

• CI: extend benchmark collection tests to optimize, not only simulate with known parameters

  CIPython
  ICB-DCM/parPE#284 · Filter by author dweindl opened on May 15, 2020

• Add singularity definition file

  ICB-DCM/parPE#277 · Filter by author dweindl opened on Apr 24, 2020

• L1/elastic net regularisation

  ICB-DCM/parPE#274 · Filter by author paulflang opened on Apr 18, 2020
  1

• Add gradient check for PEtab test suite models

  CIPEtab
  ICB-DCM/parPE#245 · Filter by author dweindl opened on Mar 14, 2020

• Save current parameter vector before cost function evaluation

  C++enhancement
  ICB-DCM/parPE#228 · Filter by author dweindl opened on Jan 21, 2020

• add option to not copy parameter estimation input to result file

  C++enhancement
  ICB-DCM/parPE#227 · Filter by author dweindl opened on Jan 17, 2020

• Verify optimal values reported by ipopt

  C++
  ICB-DCM/parPE#221 · Filter by author dweindl opened on Dec 19, 2019
  1

• generateHDF5DataFileFromText.py takes ages

  Python
  ICB-DCM/parPE#219 · Filter by author dweindl opened on Dec 18, 2019

• Use docker credential helper in deploy action

  CI
  ICB-DCM/parPE#217 · Filter by author dweindl opened on Dec 15, 2019

• Cleanup and document python library

  enhancementPython
  ICB-DCM/parPE#213 · Filter by author dweindl opened on Dec 13, 2019

• Extend snakemake workflow for result visualization

  enhancementPython
  ICB-DCM/parPE#196 · Filter by author dweindl opened on Oct 8, 2019

• Add option to (not) write simulation results by workers

  C++enhancement
  ICB-DCM/parPE#192 · Filter by author dweindl opened on Jul 24, 2019

• Add option to save llh gradients for each condition

  C++enhancement
  ICB-DCM/parPE#191 · Filter by author dweindl opened on Jul 24, 2019

• During hierarchical optimization, don't compute sensitivities w.r.t. analytically computed parameters

  C++enhancement
  ICB-DCM/parPE#190 · Filter by author dweindl opened on Jun 28, 2019

• Test hybrid MPI-OpenMP

  C++enhancement
  ICB-DCM/parPE#188 · Filter by author dweindl opened on Jun 20, 2019

• Test blaze for BLAS-like operations and handling of multidimensional arrays

  C++enhancement
  ICB-DCM/parPE#184 · Filter by author dweindl opened on Jun 2, 2019

• Update example notebooks to create out of source artifacts

  ICB-DCM/parPE#179 · Filter by author dweindl opened on May 31, 2019

• Add contribution guide

  documentation
  ICB-DCM/parPE#176 · Filter by author dweindl opened on May 31, 2019