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* Add __init__.py * Update doc/tests.md * Add spaces after commas in "(Union..." * Update qmcpy/discrete_distribution/lattice/lattice.py Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Update qmcpy/discrete_distribution/lattice/lattice.py Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Update qmcpy/discrete_distribution/iid_std_uniform.py Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Initial plan (#464) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#466) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#472) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#473) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#471) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#470) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * [WIP] Fix issues raised in feedback on documentation (#469) * Initial plan * Fix missing closing bracket in Union type hint Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Initial plan (#468) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Fix spelling errors in MaternGP docstring (#467) * Initial plan * Fix spelling errors: vectorfor -> vector for, multivariante -> multivariate Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix missing closing bracket in Union type hint (#462) * Initial plan * Fix missing closing bracket in type hint for generating_matrices parameter Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix spelling errors in MaternGP docstring (#463) * Initial plan * Fix spelling errors in matern_gp.py docstring Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix spelling errors in MaternGP documentation (#465) * Initial plan * Fix spelling errors in matern_gp.py documentation Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix typo * Fix typos * Fix typos * [WIP] Enhance documentation (#474) * Initial plan * Fix documentation issues: remove quotes and add missing closing bracket Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Adhere to PEP8 * Fix more typos * Improve test assertions for better failure diagnostics (#475) * Initial plan * Replace assertTrue with assertEqual/assertLess and remove unused imports Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * +PEP8 scoring target * Add missing spaces or brackets for better doc * Fix makefile section header formatting inconsistency (#480) * Initial plan * Fix makefile section header borders to use 58 # characters Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Update README.md * Fix "make doc" error "ERROR - mkdocstrings: qmcpy.discrete_distributions.digital_net_any_bases.halton.Halton could not be found". * Remove unreachable line of code * Fix "make doc" warnings byadding jupytext metadata frontmatter to API pages * Remove unused import * Remove unused import * Update test/README.md Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Remove unused import. Resolve Raising NoneType. * Resolve possibly used before assignment * Remove unused imports * Fix "make doc" Warning: WARNING - Doc file 'README.md' contains a link 'stats/pypi_downloads.md' * Fix improper indentation * Remove duplicate line * remove reimport * Fix errors I introduced earlier * Add 'raise' * Add raise * Removed a deprecated warning and a WARNING * Fix last warning in "make doc" related to print-site * Fix code I broke earlier * Add back imports * Add PEP8 badge to README * Replace tabs with spaces * Fix log path. Remove and correct wrong info. * Fix log path. Remove and correct wrong info. * Revert changes from earlier today * Remove duplicated file of stat/pypi_downloads.md * Change mutable default argument to None * Restrict import * Remove 2 useless lines * Change mutable default argument to None * disable pylint warning * Ignore pylint warnings of unused-import * Remove unnecessary lambda function * Remove unused variable. Change mutable default argument to None * Ignore pylint warnings of unused-import * Update .github/workflows/pep8.yml Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Remove dead module-level platform config block in parsl_test_runner.py Agent-Logs-Url: https://github.com/QMCSoftware/QMCSoftware/sessions/ce998eaf-a4e5-4968-babd-ee76e6778b8a Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Better exception handling * Better exception handling * Change mutable default argument to None * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Change push to PR * Fix workflow for pep8 * Increase test coverage for integrands * Increase test coverage for integrands * Fix test failures and add tests for qmcpy.util. * Remove one unit test * Add tests for qmcpy.accumulate_data * Update local pep8 badge * Add test coverage for stopping_criterion * Add tests to true_measure * Add tests for integrands * Clean up util tests * Use MacOS for pep8 * Take out a failing test * Fix different scores of remote and local workflow * Fix different scores of remote and local workflow * Fix different scores of remote and local workflow * Fix different scores of remote and local workflow * Update pylint badge * Sync local and remote code coverage better for user branches * Create tb_acceptance_rejection.py * Fix test failure and warnings * Update pep8 score * Update PEP8 badge (#505) Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix a doc warning. Rearrange order of blogs. * Remove unused variable * Remove test * Resolve pep8 issues * Add demo * Better exception handling * Update pep8 score * Ignore svg files * Revert * Add rendering script and styles for JOSS paper in MkDocs * Add \$(PYTEST) to suppress slow notebooks * Update PEP8 badge (#528) Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Disable Dependabot PR * link README PyPI stats to live stats branch * Update README to specify pypi-stats branch Clarify the branch for PyPI download statistics. --------- Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> Co-authored-by: Copilot <198982749+Copilot@users.noreply.github.com> Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Aleksei G. Sorokin <agsorokin3@gmail.com> Co-authored-by: Fred Hickernell <fjhickernell.IIT@gmail.com> Co-authored-by: Fred Hickernell <hickernell@illinoistech.edu>
Updated link to PyPI download statistics in README.md.
* Add __init__.py * Update doc/tests.md * Add spaces after commas in "(Union..." * Update qmcpy/discrete_distribution/lattice/lattice.py Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Update qmcpy/discrete_distribution/lattice/lattice.py Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Update qmcpy/discrete_distribution/iid_std_uniform.py Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Initial plan (#464) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#466) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#472) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#473) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#471) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#470) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * [WIP] Fix issues raised in feedback on documentation (#469) * Initial plan * Fix missing closing bracket in Union type hint Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Initial plan (#468) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Fix spelling errors in MaternGP docstring (#467) * Initial plan * Fix spelling errors: vectorfor -> vector for, multivariante -> multivariate Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix missing closing bracket in Union type hint (#462) * Initial plan * Fix missing closing bracket in type hint for generating_matrices parameter Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix spelling errors in MaternGP docstring (#463) * Initial plan * Fix spelling errors in matern_gp.py docstring Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix spelling errors in MaternGP documentation (#465) * Initial plan * Fix spelling errors in matern_gp.py documentation Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix typo * Fix typos * Fix typos * [WIP] Enhance documentation (#474) * Initial plan * Fix documentation issues: remove quotes and add missing closing bracket Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Adhere to PEP8 * Fix more typos * Improve test assertions for better failure diagnostics (#475) * Initial plan * Replace assertTrue with assertEqual/assertLess and remove unused imports Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * +PEP8 scoring target * Add missing spaces or brackets for better doc * Fix makefile section header formatting inconsistency (#480) * Initial plan * Fix makefile section header borders to use 58 # characters Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Update README.md * Fix "make doc" error "ERROR - mkdocstrings: qmcpy.discrete_distributions.digital_net_any_bases.halton.Halton could not be found". * Remove unreachable line of code * Fix "make doc" warnings byadding jupytext metadata frontmatter to API pages * Remove unused import * Remove unused import * Update test/README.md Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Remove unused import. Resolve Raising NoneType. * Resolve possibly used before assignment * Remove unused imports * Fix "make doc" Warning: WARNING - Doc file 'README.md' contains a link 'stats/pypi_downloads.md' * Fix improper indentation * Remove duplicate line * remove reimport * Fix errors I introduced earlier * Add 'raise' * Add raise * Removed a deprecated warning and a WARNING * Fix last warning in "make doc" related to print-site * Fix code I broke earlier * Add back imports * Add PEP8 badge to README * Replace tabs with spaces * Fix log path. Remove and correct wrong info. * Fix log path. Remove and correct wrong info. * Revert changes from earlier today * Remove duplicated file of stat/pypi_downloads.md * Change mutable default argument to None * Restrict import * Remove 2 useless lines * Change mutable default argument to None * disable pylint warning * Ignore pylint warnings of unused-import * Remove unnecessary lambda function * Remove unused variable. Change mutable default argument to None * Ignore pylint warnings of unused-import * Update .github/workflows/pep8.yml Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Remove dead module-level platform config block in parsl_test_runner.py Agent-Logs-Url: https://github.com/QMCSoftware/QMCSoftware/sessions/ce998eaf-a4e5-4968-babd-ee76e6778b8a Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Better exception handling * Better exception handling * Change mutable default argument to None * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Change push to PR * Fix workflow for pep8 * Increase test coverage for integrands * Increase test coverage for integrands * Fix test failures and add tests for qmcpy.util. * Remove one unit test * Add tests for qmcpy.accumulate_data * Update local pep8 badge * Add test coverage for stopping_criterion * Add tests to true_measure * Add tests for integrands * Clean up util tests * Use MacOS for pep8 * Take out a failing test * Fix different scores of remote and local workflow * Fix different scores of remote and local workflow * Fix different scores of remote and local workflow * Fix different scores of remote and local workflow * Update pylint badge * Sync local and remote code coverage better for user branches * Create tb_acceptance_rejection.py * Fix test failure and warnings * Update pep8 score * Update PEP8 badge (#505) Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix a doc warning. Rearrange order of blogs. * Remove unused variable * Remove test * Resolve pep8 issues * Add demo * Better exception handling * Update pep8 score * Ignore svg files * Revert * Add rendering script and styles for JOSS paper in MkDocs * Add \$(PYTEST) to suppress slow notebooks * Update PEP8 badge (#528) Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Disable Dependabot PR * link README PyPI stats to live stats branch * Update README to specify pypi-stats branch Clarify the branch for PyPI download statistics. * Change == to >= in tests * Update alltests to use Python 3.12 * Update CONTRIBUTING.md for clarity and additional guidelines * Update Python version to 3.13 in tests and documentation --------- Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> Co-authored-by: Copilot <198982749+Copilot@users.noreply.github.com> Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Aleksei G. Sorokin <agsorokin3@gmail.com> Co-authored-by: Fred Hickernell <fjhickernell.IIT@gmail.com> Co-authored-by: Fred Hickernell <hickernell@illinoistech.edu>
* table of qmc software * Potential fix for pull request finding typo Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Potential fix for pull request finding copilot suggested a change Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * chore: add pyyaml to docs optional dependencies Agent-Logs-Url: https://github.com/QMCSoftware/QMCSoftware/sessions/320b1ec1-874d-4f38-8824-9e7cf50fcf73 Co-authored-by: fjhickernell <817530+fjhickernell@users.noreply.github.com> * fix copilot's complaint by hardening links * Potential fix for pull request finding robustness Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * remove rendered Quarto output from source branch * Potential fix for pull request finding add version Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Update qmc-software.yml * make software table on the docs page * update readme * update readme * fix yaml * not needed * update * update makefile and instructions to qmc software list editors * add aleksei's contact info * Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Enhance documentation with update and preview instructions Added instructions for updating and previewing the QMC software page. * Validate YAML data structure in qmc_software_table.py Add validation to ensure YAML data is a list of mappings. * Fix CI test failures due to https://archive.ics.uci.edu/... * fix: wrap qmc software page generation in main guard Agent-Logs-Url: https://github.com/QMCSoftware/QMCSoftware/sessions/98f815a9-7d0e-4b51-bd69-7d377707ec93 Co-authored-by: fjhickernell <817530+fjhickernell@users.noreply.github.com> * Add missing indentation * Change `qmcpy` to "QMCPy" * Fix "make doc" error and warning * improve workflow * fix table styling * Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Potential fix for pull request finding white space Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Improve link to qmc-software.yml in README Updated link to qmc-software.yml for better accessibility. --------- Co-authored-by: Fred Hickernell <fjhickernell.IIT@gmail.com> Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: fjhickernell <817530+fjhickernell@users.noreply.github.com> Co-authored-by: Aleksei G. Sorokin <agsorokin3@gmail.com> Co-authored-by: sou-cheng-choi <sou.cheng.choi@stanfordalumni.org>
…e and doctest update for clarity
* Add __init__.py * Update doc/tests.md * Add spaces after commas in "(Union..." * Update qmcpy/discrete_distribution/lattice/lattice.py Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Update qmcpy/discrete_distribution/lattice/lattice.py Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Update qmcpy/discrete_distribution/iid_std_uniform.py Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Initial plan (#464) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#466) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#472) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#473) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#471) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Initial plan (#470) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * [WIP] Fix issues raised in feedback on documentation (#469) * Initial plan * Fix missing closing bracket in Union type hint Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Initial plan (#468) Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> * Fix spelling errors in MaternGP docstring (#467) * Initial plan * Fix spelling errors: vectorfor -> vector for, multivariante -> multivariate Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix missing closing bracket in Union type hint (#462) * Initial plan * Fix missing closing bracket in type hint for generating_matrices parameter Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix spelling errors in MaternGP docstring (#463) * Initial plan * Fix spelling errors in matern_gp.py docstring Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix spelling errors in MaternGP documentation (#465) * Initial plan * Fix spelling errors in matern_gp.py documentation Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix typo * Fix typos * Fix typos * [WIP] Enhance documentation (#474) * Initial plan * Fix documentation issues: remove quotes and add missing closing bracket Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Adhere to PEP8 * Fix more typos * Improve test assertions for better failure diagnostics (#475) * Initial plan * Replace assertTrue with assertEqual/assertLess and remove unused imports Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * +PEP8 scoring target * Add missing spaces or brackets for better doc * Fix makefile section header formatting inconsistency (#480) * Initial plan * Fix makefile section header borders to use 58 # characters Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Update README.md * Fix "make doc" error "ERROR - mkdocstrings: qmcpy.discrete_distributions.digital_net_any_bases.halton.Halton could not be found". * Remove unreachable line of code * Fix "make doc" warnings byadding jupytext metadata frontmatter to API pages * Remove unused import * Remove unused import * Update test/README.md Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Remove unused import. Resolve Raising NoneType. * Resolve possibly used before assignment * Remove unused imports * Fix "make doc" Warning: WARNING - Doc file 'README.md' contains a link 'stats/pypi_downloads.md' * Fix improper indentation * Remove duplicate line * remove reimport * Fix errors I introduced earlier * Add 'raise' * Add raise * Removed a deprecated warning and a WARNING * Fix last warning in "make doc" related to print-site * Fix code I broke earlier * Add back imports * Add PEP8 badge to README * Replace tabs with spaces * Fix log path. Remove and correct wrong info. * Fix log path. Remove and correct wrong info. * Revert changes from earlier today * Remove duplicated file of stat/pypi_downloads.md * Change mutable default argument to None * Restrict import * Remove 2 useless lines * Change mutable default argument to None * disable pylint warning * Ignore pylint warnings of unused-import * Remove unnecessary lambda function * Remove unused variable. Change mutable default argument to None * Ignore pylint warnings of unused-import * Update .github/workflows/pep8.yml Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> * Remove dead module-level platform config block in parsl_test_runner.py Agent-Logs-Url: https://github.com/QMCSoftware/QMCSoftware/sessions/ce998eaf-a4e5-4968-babd-ee76e6778b8a Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Better exception handling * Better exception handling * Change mutable default argument to None * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Better exception handling * Change push to PR * Fix workflow for pep8 * Increase test coverage for integrands * Increase test coverage for integrands * Fix test failures and add tests for qmcpy.util. * Remove one unit test * Add tests for qmcpy.accumulate_data * Update local pep8 badge * Add test coverage for stopping_criterion * Add tests to true_measure * Add tests for integrands * Clean up util tests * Use MacOS for pep8 * Take out a failing test * Fix different scores of remote and local workflow * Fix different scores of remote and local workflow * Fix different scores of remote and local workflow * Fix different scores of remote and local workflow * Update pylint badge * Sync local and remote code coverage better for user branches * Create tb_acceptance_rejection.py * Fix test failure and warnings * Update pep8 score * Update PEP8 badge (#505) Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Fix a doc warning. Rearrange order of blogs. * Remove unused variable * Remove test * Resolve pep8 issues * Add demo * Better exception handling * Update pep8 score * Ignore svg files * Revert * Add rendering script and styles for JOSS paper in MkDocs * Add \$(PYTEST) to suppress slow notebooks * Update PEP8 badge (#528) Co-authored-by: sou-cheng-choi <18743024+sou-cheng-choi@users.noreply.github.com> * Disable Dependabot PR * link README PyPI stats to live stats branch * Update README to specify pypi-stats branch Clarify the branch for PyPI download statistics. * Change == to >= in tests * Update alltests to use Python 3.12 * Update CONTRIBUTING.md for clarity and additional guidelines * Update Python version to 3.13 in tests and documentation * Update Parsl and pytest version * Update software tables * Run notebook tests only in master/develop * Clarify details * Further scale back of tests * Update CI tests for cost control * Fix CI test errors * Fix test failures * Update software table * low discrepancy sequences -> LDS * Use abbreviations * Add CI test documentation * Update CI doc and workflows * Fix test failures * Remove redundant Python version and channels from Miniconda * -v3.13 in unit tests * Pin Miniconda base Python version to 3.13 in CI workflows and update documentation * minor chang * Update ci-testing.md * Update CONTRIBUTING.md to emphasize the importance of deleting merged feature branches * Update concurrency settings in alltests.yml and ci-testing.md for clearer run management --------- Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com> Co-authored-by: Copilot <198982749+Copilot@users.noreply.github.com> Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Aleksei G. Sorokin <agsorokin3@gmail.com> Co-authored-by: Fred Hickernell <fjhickernell.IIT@gmail.com> Co-authored-by: Fred Hickernell <hickernell@illinoistech.edu>
* adding UM-Bridage software package * Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> --------- Co-authored-by: Fred Hickernell <fjhickernell.IIT@gmail.com> Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com>
* table of qmc software * Potential fix for pull request finding typo Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Potential fix for pull request finding copilot suggested a change Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * chore: add pyyaml to docs optional dependencies Agent-Logs-Url: https://github.com/QMCSoftware/QMCSoftware/sessions/320b1ec1-874d-4f38-8824-9e7cf50fcf73 Co-authored-by: fjhickernell <817530+fjhickernell@users.noreply.github.com> * fix copilot's complaint by hardening links * Potential fix for pull request finding robustness Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * remove rendered Quarto output from source branch * Potential fix for pull request finding add version Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Update qmc-software.yml * make software table on the docs page * update readme * update readme * fix yaml * not needed * update * update makefile and instructions to qmc software list editors * add aleksei's contact info * Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Enhance documentation with update and preview instructions Added instructions for updating and previewing the QMC software page. * Validate YAML data structure in qmc_software_table.py Add validation to ensure YAML data is a list of mappings. * Fix CI test failures due to https://archive.ics.uci.edu/... * fix: wrap qmc software page generation in main guard Agent-Logs-Url: https://github.com/QMCSoftware/QMCSoftware/sessions/98f815a9-7d0e-4b51-bd69-7d377707ec93 Co-authored-by: fjhickernell <817530+fjhickernell@users.noreply.github.com> * Add missing indentation * Change `qmcpy` to "QMCPy" * Fix "make doc" error and warning * improve workflow * fix table styling * Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Potential fix for pull request finding white space Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Improve link to qmc-software.yml in README Updated link to qmc-software.yml for better accessibility. * update Dakota in QMC software table --------- Co-authored-by: Fred Hickernell <fjhickernell.IIT@gmail.com> Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com> Co-authored-by: fjhickernell <817530+fjhickernell@users.noreply.github.com> Co-authored-by: Aleksei G. Sorokin <agsorokin3@gmail.com> Co-authored-by: sou-cheng-choi <sou.cheng.choi@stanfordalumni.org>
* add roles document * Add Theory Lead. Add to Doc. Minor modification. * Fix a typo * Add a blank line * remove duplicate * Minor changes * Remove quotes * +Larysa * Update QMCPy_Shared_Leadership.md * Apply suggestions from code review Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> * Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com> --------- Co-authored-by: Fred Hickernell <fjhickernell.IIT@gmail.com> Co-authored-by: sou-cheng-choi <sou.cheng.choi@stanfordalumni.org> Co-authored-by: alegresor <agsorokin3@gmail.com> Co-authored-by: sou-cheng-choi <schoi32@illinoistech.edu> Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com>
…m monitoring times
…ian, Zero Inflated Exponential, and Kumaraswamy (#558) * added methods for mean and variance for uniform TrueMeasure * Add tests for mean and variance calculations in Uniform distribution * mean and covariance calculations as attributes rather than methods for Uniform TrueMeasure and updated tests * Added mean and covariance to self.parameters and updated doctests. * Added standard deviation and variance as attributes. Updated doctests. * updated demo notebook * mean, variance, standard deviation, and covariance for kumaraswamy * reduced number of replications * Added attributes for mean, variance, standard deviation, and covariance for Kumaraswamy and Gaussian. Updated relevant doctests. Demos for Kumaraswamy and Gaussian are at the bottom of the notebook. * added test for variance, mean, covariance, standard deviation checks * self.mean as float * Updated the Gaussian doctest to expect floating point output. Added more tests for mean, var, stdev, and cov attributes * coverage for modules that used Gaussian. additionally updated doctest for MaternGP as it inherits Gaussian class * Fix Keister exact value for one dimensional inputs Guard the second recurrence initialization when d=1 to avoid indexing past one element arrays. Update lattice constructor validation to use LINEAR as the invalid order, since NATURAL is a valid alias for RADICAL INVERSE. * Update covariance formatting in MaternGP and add 2D Keister exact value tests * Add booktest * Demo notebook loops gives tables and plots for all 3 distributions. Additionally updated demo notebook to use scientific notation for values below 5e-4. Added demo notebook to mkdocs.yml. * Fix MaternGP spawning and preserve kernel parameters * tests for materngp spawn * Validate Uniform bounds to prevent negative standard deviation * added unit tests which numerically verify the mean and covariance matrix for the objects * Variance and standard deviation added for BrownianMotion instances. * Validated inputs for Uniform true measure * Make statistical moment properties read only * kumaraswamy variance formula changed * chatgpt suggestion * Cleaned up code and fixed variance to return length d array and covariance to return dxd matrix * Store diagonal covariance sparsely for Uniform and Kumaraswamy * Added references for Kumaraswamy mean and variance * Added mean, standard deviation, and variance for ZeroInflatedExpUniform (no covariance for 1D). Tests and notebook updated. * Return scalars for univariate measures. Update tests for ZeroInflatedExpUniform * typo in vriance formula * fix typo * fixing my mistakes * removed print(variance) so doctests work * fixed notebook shape mismatch error * Fix Kumaraswamy moments for small a using exact betaln closed form rather than Gauss Legendre quadrature. Added a=0.01 case to test_variance_matches_closed_form. * Fix int8 overflow in Uniform bounds by changing to float64 * Add MaternGP.kernel_variance property and deprecate scalar .variance .variance now returns marginal variances (Gaussian parent convention). Use kernel_variance for the scalar. Gives a DeprecationWarning on .variance access. * validated that inputs a and b are finite and positive * return diagonal covariance sparsely for Uniform/Kumaraswamy and updated tests and notebook * Update doctests for sparse covariance display * updated doctests * fix resume equality check for scipy sparse matrices --------- Co-authored-by: Fred J. Hickernell <fjhickernell@gmail.com> Co-authored-by: sou-cheng-choi <sou.cheng.choi@stanfordalumni.org> Co-authored-by: Fred Hickernell <fjhickernell.IIT@gmail.com>
Add Brownian Bridge path construction as decomp_type option (issue #504)
* Update PEP8 badge * Update PEP8 badge --------- Co-authored-by: ishn29 <206459823+ishn29@users.noreply.github.com> Co-authored-by: alegresor <agsorokin3@gmail.com> Co-authored-by: alegresor <39531535+alegresor@users.noreply.github.com>
* Remove coverage warning from "make tests_fast" * Update run time of notebooks * Recovered content in docs/ci-testing.md * Recover “Other quasi-Monte Carlo software” section * Pin Unix and Windows to Python 3.13 with retry of 3 times * Reverse last change * Add documentation * Add doc * Add doc * Refactor imports in QMCPy modules to use top-level package * Address GitHub-code-quality comments * Deduplicate "from qmcpy import *" * Fix typo * Raise ModuleNotFoundError if package not available * Respond to Copilot comments * Keep optional import diagnostics private * Clarify optional MPMC utility exports * Better optional MPMC imports with error handling for missing dependencies * Expand from qcmpy import * to specific imports * + Pylint checks for changed Python files in the makefile * Fix error handling * Normalize comma spacing in qmcpy import statements * Sort QMCPy imports in alphabetical ordered and deduplicated where applicable * Tools for formatting * Update makefile * Remove trailing spaces * Take out PFGPCIData in __init__.py * Removed recently promoted utility names. * restore "from qmcpy.util..." * Enhance flatten imports functionality and add tests for import preservation and star-import behavior * Add missing optional imports for torch dependencies and update tests * Implement optional-dependency-free import context for loading QMCPy public names and add corresponding tests * Shorten test function names * Update unittests.yml by configuring the action with python-version * Revert "Update unittests.yml by configuring the action with python-version" This reverts commit cbb4787. * Remove unused imports and classes from __init__.py files * Harden QMCPy import formatting * Export TriangularDistribution from true_measure * Restore import statements for TriangularDistribution in demo and documentation * Fix unit test failures * Fix unit tests failures * Add unit test for new notebook * Add missing imports * Remove import of TriangularDistribution from true_measure * Fix import statement for Halton and clean up whitespace * Refactor import statements for consistency and readability * Enhance test for public names to include checks for optional dependencies and non-public helpers * Refactor Makefile targets for markdown processing and whitespace removal * Remove new lines in markdown and training spaces * Update .gitignore to include virtual environment, AI and Quarto artifacts * Update citation details in README and BibTeX file for accuracy and completeness --------- Co-authored-by: JiangruiKang <56698386+JiangruiKang@users.noreply.github.com>
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sou-cheng-choi
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alegresor
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…__.py (#593) * Update __init__.py * Delete __init__.py
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rvare
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Aug 14, 2026
… & typos. (#594) * Remove coverage warning from "make tests_fast" * Update run time of notebooks * Recovered content in docs/ci-testing.md * Recover “Other quasi-Monte Carlo software” section * Pin Unix and Windows to Python 3.13 with retry of 3 times * Reverse last change * Add documentation * Add doc * Add doc * Refactor imports in QMCPy modules to use top-level package * Address GitHub-code-quality comments * Deduplicate "from qmcpy import *" * Fix typo * Raise ModuleNotFoundError if package not available * Respond to Copilot comments * Keep optional import diagnostics private * Clarify optional MPMC utility exports * Better optional MPMC imports with error handling for missing dependencies * Expand from qcmpy import * to specific imports * + Pylint checks for changed Python files in the makefile * Fix error handling * Normalize comma spacing in qmcpy import statements * Sort QMCPy imports in alphabetical ordered and deduplicated where applicable * Tools for formatting * Update makefile * Remove trailing spaces * Take out PFGPCIData in __init__.py * Removed recently promoted utility names. * restore "from qmcpy.util..." * Enhance flatten imports functionality and add tests for import preservation and star-import behavior * Add missing optional imports for torch dependencies and update tests * Implement optional-dependency-free import context for loading QMCPy public names and add corresponding tests * Shorten test function names * Update unittests.yml by configuring the action with python-version * Revert "Update unittests.yml by configuring the action with python-version" This reverts commit cbb4787. * Remove unused imports and classes from __init__.py files * Harden QMCPy import formatting * Export TriangularDistribution from true_measure * Restore import statements for TriangularDistribution in demo and documentation * Fix unit test failures * Fix unit tests failures * Add unit test for new notebook * Add missing imports * Remove import of TriangularDistribution from true_measure * Fix import statement for Halton and clean up whitespace * Refactor import statements for consistency and readability * Enhance test for public names to include checks for optional dependencies and non-public helpers * Refactor Makefile targets for markdown processing and whitespace removal * Remove new lines in markdown and training spaces * Update .gitignore to include virtual environment, AI and Quarto artifacts * Update citation details in README and BibTeX file for accuracy and completeness * Implemented list-aware Markdown unwrapping * Change target name * Add missing import * clean up unused imports * Fix errors related to variables * Addressed ~30 false positive E1101 no-member errors caused by dynamic attribute exposure in scientific libraries (numpy, scipy, matplotlib) * Better code coverage Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * Update pep8 * +korobov_hammersley_latinhypercube_demos.ipynb to mkdocs.yml * Recover site_url Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * Recover tools for checking links Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * Fix broken links Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * Fix broken link Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * Fix broken link Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * Fix broken link Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * Update broken link Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * Fix broken links Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * Fix broken link Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * Fix broken link Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * +doc on how to run doctests on a file Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * disregard warning * Suppress two doctests warnings * fix typos Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * fix grammar Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> * fix spelling and grammar * Fix typos * Fix grammar * fix typos * Fix typos * Fix numbering * Fix thpos * Fix typo * Restore the demo from develop branch and just fix a broken link * Fix typos * Fix typos --------- Co-authored-by: JiangruiKang <56698386+JiangruiKang@users.noreply.github.com> Co-authored-by: Claude Sonnet 5 <noreply@anthropic.com>
Update PEP8 badge
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Aug 16, 2026
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