NEWS.md

In bhmbasket: Bayesian Hierarchical Models for Basket Trials

bhmbasket 0.9.5

Fixed Bugs

• Fixed a bug that occured in performAnalyses() using R-devel due to a recent change in stats::aggregate()

New & Altered Features

• Introduced nested parallelization for better usage of HPC resources

• Introduced chunking of tasks for better performance in parallel environments

• Updated vignette on HPC environment

• Update documentation of performAnalyses()

• Recommended doFuture and future over doParallel and parallel when no parallel backend is detected

• Updated Suggests and SystemRequirements in DESCRIPTION

• Added a WORDLIST

• Minor changes in code

bhmbasket 0.9.4

Fixed Bugs

• Fixed a bug in continueRecruitment() that could result in additional subjects to be recruited when the overall decision for a trial realization is NoGo but some cohorts of that trial realization have Go decisions.

• Fixed a bug in performAnalyses() that would occur if all trial realizations of a scenario had a previous overall NoGo decision and would result in performAnalyses() to return an empty list for that scenario's posterior quantiles.

• Specified R2jags package version requirement in DESCRIPTION to prevent 'unused argument' bug in performAnalyses()

• Fixed warning message not showing when specifying deprecated arguments 'seed' and 'n_cores' in performAnalyses()

New & Altered Features

• Usage of doRNG package for fully reproducible results in parallel execution

• Usage of hash tables for mapping unique trial realizations to scenario trial realizations resulting in performance improvement

• Added a vignette that provides a short example on how to use bhmbasket in a high performance computing environment

• JAGS model files stored in package instead of writing to temporary files

• Updated Imports in DESCRIPTION

• Updated CITATION

• Minor changes in code

• Updated documentation

• Removed superfluous files

bhmbasket 0.9.3

Fixed Bugs

• Fixed a bug in continueRecruitment() that could result in an error message and prevent the function from running although all conditions were met.

• Fixed a bug leading to an error messages in getEstimates(). It would occur if in a previous call of performAnalyses() differences between cohorts were calculated, but not in the current call of performAnalyses().

New & Altered Features

• Registration of parallel backend is now the responsibility of the user to allow for flexibility. A respective message is displayed in performAnalyses() if no parallel backend is registered.

• Functions simulateScenarios() and performAnalyses() look up for their arguments 'n_trials' and 'n_mcmc_iterations', respectively, in the global environment if not provided by user.

• Arguments 'n_subjects_list' and 'n_subjects_add_list' of the functions simulateScenarios() and continueRecruitment(), respectively, can be provided as a single vector for the case when all scenarios recruit the same number of subjects.

• Arguments 'seed' and 'n_cores' were deprecated in performAnalyses(). The argument 'seed' was not used in the call of R2jags::jags(), see also the the documentation of 'jags.seed' in ?R2jags::jags. The argument 'n_cores' is no longer needed as the registration of the parallel backend is now the responsibility of the user.

• Added the argument 'overall_min_nogos' to the function negateGoDecisions().

• Added an input check in function getEstimates() regarding the argument 'add_parameters'.

• Changed date format in message from performAnalyses()

• Updated documentation

• Updated Imports and Suggests in DESCRIPTION

• Minor changes in code

bhmbasket 0.9.2

• Fixed a rare bug that could result in wrong overall decision in getGoDecisions() in the presence of previous go decisions

• Updated documentation

• Updated Description in DESCRIPTION

• Minor changes in code

bhmbasket 0.9.1

• Measures to fulfill CRAN policies and recommendations

bhmbasket 0.9.0

• Initial release

bhmbasket documentation built on March 18, 2022, 7:46 p.m.