paul-buerkner / brms

Compare e1c44ce ... +0 ... 70dc9e7

82.26% 93.33% -<.01%

Overview Diff Coverage Changes Files Commits
Coverage Reach
stan-predictor.R distributions.R priors.R prepare_predictions.R families.R log_lik.R data-predictor.R brmsterms.R stan-likelihood.R conditional_effects.R brmsfit-helpers.R backends.R posterior_predict.R brmsformula.R misc.R stan-response.R formula-re.R restructure.R stan-prior.R rename_pars.R data-response.R posterior_epred.R family-lists.R data-helpers.R loo.R summary.R make_stancode.R predictor.R formula-sp.R hypothesis.R brmsfit-methods.R formula-ac.R autocor.R update.R kfold.R stan-helpers.R make_standata.R formula-ad.R model_weights.R formula-gp.R projpred.R conditional_smooths.R pp_check.R stanvars.R exclude_pars.R emmeans.R brm.R posterior_samples.R brm_multiple.R loo_moment_match.R loo_predict.R reloo.R plot.R posterior.R prior_draws.R numeric-helpers.R posterior_smooths.R predictive_error.R ggplot-themes.R formula-sm.R bayes_R2.R bridgesampling.R pp_mixture.R lsp.R exclude_terms.R launch_shinystan.R loo_subsample.R brmsfit-class.R diagnostics.R formula-cs.R

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Showing 2 of 2 files from the diff.

@@ -485,12 +485,8 @@
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485 485 
    )
486 486 
  }
487 487 
  if (!is.null(special$lasso)) {
488 - 
    str_add(out$par) <- glue(
489 - 
      "  vector[K{ct}{sp}] b{sp};  // population-level effects\n"
490 - 
    )
491 - 
    str_add(out$pll_args) <- glue(", vector b{sp}")
492 488 
    str_add(out$model_prior) <- glue(
493 - 
      "{tp}double_exponential_lpdf(b{sp} | 0, lasso_scale{p} * lasso_inv_lambda{p});\n"
489 + 
      "{tp}double_exponential_lpdf(b{suffix}{sp} | 0, lasso_scale{p} * lasso_inv_lambda{p});\n"
494 490 
    )
495 491 
  }
496 492 
  out

@@ -320,11 +320,14 @@
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320 320 
      b_comment <- "population-level effects"
321 321 
      if (has_special_b_prior) {
322 322 
        stopif_prior_bound(prior, class = "b", ls = px)
323 + 
        b_def <- glue("  {b_type} b{p};  // {b_comment}\n")
323 324 
        if (assign_b_tpar) {
324 325 
          # only some special priors assign b in transformed parameters
325 - 
          str_add(out$tpar_def) <- glue("  {b_type} b{p};  // {b_comment}\n")
326 - 
          str_add(out$pll_args) <- glue(", vector b{p}")
326 + 
          str_add(out$tpar_def) <- b_def
327 + 
        } else {
328 + 
          str_add(out$par) <- b_def
327 329 
        }
330 + 
        str_add(out$pll_args) <- glue(", vector b{p}")
328 331 
      } else {
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        str_add_list(out) <- stan_prior(
330 333 
          prior, class = "b", coef = fixef, type = b_type,
@@ -338,11 +341,14 @@
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338 341 
      b_suffix <- "Q"
339 342 
      b_comment <- "regression coefficients at QR scale"
340 343 
      if (has_special_b_prior) {
344 + 
        bQ_def <- glue("  {b_type} bQ{p};  // {b_comment}\n")
341 345 
        if (assign_b_tpar) {
342 346 
          # only some special priors assign b in transformed parameters
343 - 
          str_add(out$tpar_def) <- glue("  {b_type} bQ{p};  // {b_comment}\n")
344 - 
          str_add(out$pll_args) <- glue(", vector bQ{p}")
347 + 
          str_add(out$tpar_def) <- bQ_def
348 + 
        } else {
349 + 
          str_add(out$par) <- bQ_def
345 350 
        }
351 + 
        str_add(out$pll_args) <- glue(", vector bQ{p}")
346 352 
      } else {
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        str_add_list(out) <- stan_prior(
348 354 
          prior, class = "b", coef = fixef, type = b_type,
@@ -983,13 +989,17 @@
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983 989 
  # prepare special effects coefficients
984 990 
  if (stan_has_special_b_prior(bterms, prior)) {
985 991 
    stopif_prior_bound(prior, class = "b", ls = px)
992 + 
    bsp_def <- glue(
993 + 
      "  // special effects coefficients\n",
994 + 
      "  vector[Ksp{p}] bsp{p};\n"
995 + 
    )
986 996 
    if (stan_assign_b_tpar(bterms, prior)) {
987 997 
      # only some special priors assign b in transformed parameters
988 - 
      str_add(out$tpar_def) <- glue(
989 - 
        "  // special effects coefficients\n",
990 - 
        "  vector[Ksp{p}] bsp{p};\n"
991 - 
      )
998 + 
      str_add(out$tpar_def) <- bsp_def
999 + 
    } else {
1000 + 
      str_add(out$par) <- bsp_def
992 1001 
    }
1002 + 
    str_add(out$pll_args) <- glue(", vector bsp{p}")
993 1003 
  } else {
994 1004 
    str_add_list(out) <- stan_prior(
995 1005 
      prior, class = "b", coef = spef$coef,

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2 Commits

Paul-Christian Bürkner
82.26% 93.33% -<.01%
fix isse #1427 more convincingly
paul-buerkner
70dc9e7
CI Passed
+4
+3
+1
Paul-Christian Bürkner
82.26% 100.00% +<.01%
fix issue #1427
paul-buerkner
e1c44ce
CI Passed
Files Coverage
R -<.01% 82.26%
Project Totals (70 files) 82.26%
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