Function for sequential learning #391
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osorensen
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Feb 28, 2024
* bookkeeping * removed unnecessary call * marking as const * adding more consts * additional safety measures * parallelization working (#355) * parallelization working * updating tests * styling * updating test * added info about parallelization * correcting an error in docs * update cran-comments * updating comments * updating news * deleting submission file * Adding support for sampling from prior (#360) * added prior sampling * updating news * deleting submission file * fixing the prior sampling * styling * added unit test for SMC starting from prior * added test for sample_prior * updating test after merging with TBB * styling * updating news * fixed error in update_mallows.SMCMallows * updated failing test and added namespace qualifier * added long-running SMC test from prior * Take care of item names properly (#363) * fixing item name issue * updating a unit test * styling * Can now deal with a single vector of input data (#364) * added handling of vector data #361 * styling * updating news * updated set_priors function * closes #370 * Added a gamma prior (#371) * updated set_priors function * closes #370 * Had forgot to implement the change... (#372) * updated set_priors function * closes #370 * fixed forgotten implementation * Added lag option (#373) * updated documentation * adding references section * more documentation updates * updated set_priors function * closes #370 * implemented user-defined lag * added lag, closes #369 * styling * ready for the change * Resampling issue 365 (#376) * updated set_priors function * closes #370 * ready for the change * implemented the resampler in cpp * added various resampling options. tests are missing * fixed numerical overflow problem and forgotten mcmc loop * added a simple test for the resampler * styling * added missing memory header * removed two tests where my M1 mac gives different results * removed git conflict marker * added a line shift * removing const-ref from built-in types * refactoring limits functions for pairwise augmentation * increasing test strictness * added some more work * moving distance code into implementation file * moved partition function code into cpp files * added code for reproducing Liu et al 2019 review * changed updating frequency for pkgdown. closes #380 * adding ignore to codecov * fixing #381 (#382) * Heatplot issue 381 (#383) * fixing #381 * added unit test for #381 * updated news * updated tests * Swap issue 368 (#384) * first refactoring of leap-and-shift * renamed back * made proposal class * made rank proposal class * updated tests * fixed bug in call to leapandshift * removing work docs * some more back and forth * added the LeapAndShift class to SMC * inherited the constructor for ProposalDistribution * figured out there is a swap function * made distfun a class member * swap proposal implemented for rho * updated news and tests * refactored propose_swap * making class for swap proposal * added the active set strategy or whatever it's called to augmented rankings * removed unnecessary update_leap_and_shift_indices functions * could remove distfun from ProposalDistribution * refactoring * styling * incremented dev version * corrected typo in docs * refactor * removed unused argument * changed argument order * moved metric into the parameters class * fixed a bug * simplifying the tidy function * simplified n_assessors argument * removed observation_frequency from cpp return values * moved any_missing to setup_rank_data * moving augpair to setup_rank_data * added test for burnin * some fixes * updated news * rebuilt smc vignette * recompiled readme * Function for sequential learning (#391) * incremented dev version * got rid of unused variable * turned new_data into a list * main part ready and passing tests * styling and fixing docs issue * Updating docs * small steps * adding user ids * added the consistency vector to the particles * updating examples * updating more * updating examples * passing rcmdchck * added deprecation notice for old burnin setting * skipping the deprecation notice * removed unnecessary brackets * updated particle handling * removed unused code * refactoring complete * ready for sequential updating * we have a loop * small fix * added learning examples * added test * added tests * styling and updating docs * updated expected test output * have to get rid of a test for now due to platform dependence * harmonizing pairwise and partial * Burnin issue 394 (#396) * added burnin * made iteration number a class member * simplified alpha update * got rid of rho_index * added alpha acceptance rate and test * preparing for rho_acceptance * added rho burnin * added tracking of acceptance * updating docs and examples * styling * incremented dev version * updated example * styling * styling * pleasing CodeFactor * fixed bug in acceptance rate for compute_mallows_sequentially * not linting examples * small improvement of docs to plot_elbow
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Closes #386