v0.1.2 release #20
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v0.1.2 release #20
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* comment-out category * second try
* implement grp-coef-type param; move grp-coef-extraction into helper function * fix bug in _format_grp_coefs_vectors * remove some error checking from _extract_grp_coefs
Add pp-values to generated quantities block
modify baseline hazard to use randomwalk prior; include pp-values in generated quantities block
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@jburos what's blocking the merge for this PR? |
* add FIT_FUN to modify stanity.fit; add file so code is optional * pass file explicitly to FIT_FUN * modify .travis.yml to run long-running tests * separate requirements from test_requirements * first attempt * update tests & split into multiple files * updated documentation * use correlated data for test cases * clean up test code * fix repeated seed bug * fix bug * ignore model cache * use ./wait4.sh code * require upgrade to pystan 2.12.0 * echo stdout before exit, in wait4 * make tests less verbose unless they fail * fix wait4.sh to take all parameters * simplify memory reqs for tests * remove wait4.sh pre-command * fix wait4.sh script * restore wait4.sh command * split up tests * split tests into separate builds; try caching models * make sure wait4.sh prints output; skip tests for now just test wait4.sh * limit number of tests * update travis to use bash * simplify final exit * remove cached_models from travis-cache; remove cache-only option * restore options to other tests * increase num iter * use AGG backend for figs * restore all tests using AGG; increase iter on all tests * return to using stancache; reduce iter; reduce number of models * reformat cache * rename baseline_raw -> baseline * split test files in half for more efficient run time * remove unused file * fix error in test code * add sample size param for test dataset size * restore travis tests for py3 * rename baseline_raw -> baseline for consistency * include varcoefs in test code * add tvc model to tests * try to fix syntax error * actually fix group_col param * update varcoef model to latest code * change baseline_raw -> baseline for consistency
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Enhancements:
plot_coefs& supporting functions(
element="baseline",element="grp_coefs", etc)transoption, so that one can plot exp(beta) or betafit_stan_survival_modelmore robust to failures in post-processingNew features:
survivalstan.utils.plot_pp_survival(models=[my_model])plot_observed_survival(..))survivalstan.utils.prep_pp_data