[R/are_clock_models.R:10:7:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_clock_models.R#L10) *warning:* **no visible global function definition for ‘is_clock_model’**
```r
  if (is_clock_model(x)) return(TRUE)
      ^~~~~~~~~~~~~~
```
[R/are_clock_models.R:12:10:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_clock_models.R#L12) *warning:* **no visible global function definition for ‘is_clock_model’**
```r
    if (!is_clock_model(i)) return(FALSE)
         ^~~~~~~~~~~~~~
```
[R/are_clock_models.R:29:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_clock_models.R#L29) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/are_clock_models.R:32:16:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_clock_models.R#L32) *warning:* **no visible global function definition for ‘is_rln_clock_model’**
```r
    rlns[i] <- is_rln_clock_model(clock_models[[i]])
               ^~~~~~~~~~~~~~~~~~
```
[R/are_ids.R:11:7:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_ids.R#L11) *warning:* **no visible global function definition for ‘is_id’**
```r
  if (is_id(x)) return(TRUE)
      ^~~~~
```
[R/are_ids.R:14:10:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_ids.R#L14) *warning:* **no visible global function definition for ‘is_id’**
```r
    if (!is_id(i)) return(FALSE)
         ^~~~~
```
[R/are_init_clock_models.R:10:8:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_init_clock_models.R#L10) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  if (!are_clock_models(x)) return(FALSE)
       ^~~~~~~~~~~~~~~~
```
[R/are_init_mrca_priors.R:10:8:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_init_mrca_priors.R#L10) *warning:* **no visible global function definition for ‘are_mrca_priors’**
```r
  if (!are_mrca_priors(x)) return(FALSE)
       ^~~~~~~~~~~~~~~
```
[R/are_init_site_models.R:10:8:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_init_site_models.R#L10) *warning:* **no visible global function definition for ‘are_site_models’**
```r
  if (!are_site_models(x)) return(FALSE)
       ^~~~~~~~~~~~~~~
```
[R/are_init_tree_priors.R:10:8:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_init_tree_priors.R#L10) *warning:* **no visible global function definition for ‘are_tree_priors’**
```r
  if (!are_tree_priors(x)) return(FALSE)
       ^~~~~~~~~~~~~~~
```
[R/are_initial_phylogenies.R:10:23:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_initial_phylogenies.R#L10) *warning:* **no visible global function definition for ‘is_phylo’**
```r
    if (!is.na(x) && !is_phylo(x)) return(FALSE)
                      ^~~~~~~~
```
[R/are_mrca_alignment_ids_in_fastas.R:12:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_mrca_alignment_ids_in_fastas.R#L12) *warning:* **no visible global function definition for ‘are_mrca_priors’**
```r
  testit::assert(are_mrca_priors(mrca_priors))
                 ^~~~~~~~~~~~~~~
```
[R/are_mrca_alignment_ids_in_fastas.R:15:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_mrca_alignment_ids_in_fastas.R#L15) *warning:* **no visible global function definition for ‘is_mrca_prior’**
```r
    testit::assert(is_mrca_prior(mrca_prior))
                   ^~~~~~~~~~~~~
```
[R/are_mrca_alignment_ids_in_fastas.R:16:21:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_mrca_alignment_ids_in_fastas.R#L16) *warning:* **no visible global function definition for ‘is_one_na’**
```r
    testit::assert(!is_one_na(mrca_prior))
                    ^~~~~~~~~
```
[R/are_mrca_taxa_names_in_fastas.R:11:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_mrca_taxa_names_in_fastas.R#L11) *warning:* **no visible global function definition for ‘are_mrca_priors’**
```r
  testit::assert(are_mrca_priors(mrca_priors))
                 ^~~~~~~~~~~~~~~
```
[R/are_mrca_taxa_non_intersecting.R:12:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_mrca_taxa_non_intersecting.R#L12) *warning:* **no visible global function definition for ‘are_mrca_priors’**
```r
  testit::assert(are_mrca_priors(mrca_priors))
                 ^~~~~~~~~~~~~~~
```
[R/are_mrca_taxa_non_intersecting.R:13:7:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_mrca_taxa_non_intersecting.R#L13) *warning:* **no visible global function definition for ‘is_one_na’**
```r
  if (is_one_na(mrca_priors)) return(TRUE)
      ^~~~~~~~~
```
[R/are_mrca_taxa_non_intersecting.R:16:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_mrca_taxa_non_intersecting.R#L16) *warning:* **no visible global function definition for ‘is_mrca_prior’**
```r
    testit::assert(is_mrca_prior(mrca_prior_1))
                   ^~~~~~~~~~~~~
```
[R/are_mrca_taxa_non_intersecting.R:17:21:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_mrca_taxa_non_intersecting.R#L17) *warning:* **no visible global function definition for ‘is_one_na’**
```r
    testit::assert(!is_one_na(mrca_prior_1))
                    ^~~~~~~~~
```
[R/are_mrca_taxa_non_intersecting.R:20:22:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_mrca_taxa_non_intersecting.R#L20) *warning:* **no visible global function definition for ‘is_mrca_prior’**
```r
      testit::assert(is_mrca_prior(mrca_prior_2))
                     ^~~~~~~~~~~~~
```
[R/are_mrca_taxa_non_intersecting.R:21:23:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_mrca_taxa_non_intersecting.R#L21) *warning:* **no visible global function definition for ‘is_one_na’**
```r
      testit::assert(!is_one_na(mrca_prior_2))
                      ^~~~~~~~~
```
[R/are_site_models.R:10:7:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_site_models.R#L10) *warning:* **no visible global function definition for ‘is_site_model’**
```r
  if (is_site_model(x)) return(TRUE)
      ^~~~~~~~~~~~~
```
[R/are_site_models.R:12:10:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_site_models.R#L12) *warning:* **no visible global function definition for ‘is_site_model’**
```r
    if (!is_site_model(i)) return(FALSE)
         ^~~~~~~~~~~~~
```
[R/are_tree_priors.R:14:10:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/are_tree_priors.R#L14) *warning:* **no visible global function definition for ‘is_tree_prior’**
```r
    if (!is_tree_prior(i)) return(FALSE)
         ^~~~~~~~~~~~~
```
[R/clock_model_to_xml_lh_distr.R:23:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_lh_distr.R#L23) *warning:* **no visible global function definition for ‘is_clock_model’**
```r
  testit::assert(is_clock_model(clock_model))
                 ^~~~~~~~~~~~~~
```
[R/clock_model_to_xml_lh_distr.R:25:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_lh_distr.R#L25) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/clock_model_to_xml_operators.R:11:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_operators.R#L11) *warning:* **no visible global function definition for ‘is_clock_model’**
```r
  testit::assert(is_clock_model(clock_model))
                 ^~~~~~~~~~~~~~
```
[R/clock_model_to_xml_operators.R:19:22:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_operators.R#L19) *warning:* **no visible global function definition for ‘is_id’**
```r
      testit::assert(is_id(id))
                     ^~~~~
```
[R/clock_model_to_xml_operators.R:34:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_operators.R#L34) *warning:* **no visible global function definition for ‘is_rln_clock_model’**
```r
    testit::assert(is_rln_clock_model(clock_model))
                   ^~~~~~~~~~~~~~~~~~
```
[R/clock_model_to_xml_operators.R:37:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_operators.R#L37) *warning:* **no visible global function definition for ‘is_id’**
```r
    testit::assert(is_id(id))
                   ^~~~~
```
[R/clock_model_to_xml_prior_distr.R:19:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_prior_distr.R#L19) *warning:* **no visible global function definition for ‘is_clock_model’**
```r
  testit::assert(is_clock_model(clock_model))
                 ^~~~~~~~~~~~~~
```
[R/clock_model_to_xml_prior_distr.R:29:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_prior_distr.R#L29) *warning:* **no visible global function definition for ‘is_id’**
```r
    testit::assert(is_id(id))
                   ^~~~~
```
[R/clock_model_to_xml_prior_distr.R:44:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_prior_distr.R#L44) *warning:* **no visible global function definition for ‘is_strict_clock_model’**
```r
    testit::assert(is_strict_clock_model(clock_model))
                   ^~~~~~~~~~~~~~~~~~~~~
```
[R/clock_model_to_xml_prior_distr.R:48:22:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_prior_distr.R#L48) *warning:* **no visible global function definition for ‘is_id’**
```r
      testit::assert(is_id(id))
                     ^~~~~
```
[R/clock_model_to_xml_state.R:11:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_state.R#L11) *warning:* **no visible global function definition for ‘is_clock_model’**
```r
  testit::assert(is_clock_model(clock_model))
                 ^~~~~~~~~~~~~~
```
[R/clock_model_to_xml_state.R:13:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_state.R#L13) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(clock_model$id))
                 ^~~~~
```
[R/clock_model_to_xml_state.R:26:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_state.R#L26) *warning:* **no visible global function definition for ‘is_rln_clock_model’**
```r
    testit::assert(is_rln_clock_model(clock_model))
                   ^~~~~~~~~~~~~~~~~~
```
[R/clock_model_to_xml_tracelog.R:16:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_tracelog.R#L16) *warning:* **no visible global function definition for ‘is_clock_model’**
```r
  testit::assert(is_clock_model(clock_model))
                 ^~~~~~~~~~~~~~
```
[R/clock_model_to_xml_tracelog.R:18:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_tracelog.R#L18) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/clock_model_to_xml_tracelog.R:33:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_tracelog.R#L33) *warning:* **no visible global function definition for ‘is_strict_clock_model’**
```r
    testit::assert(is_strict_clock_model(clock_model))
                   ^~~~~~~~~~~~~~~~~~~~~
```
[R/clock_model_to_xml_treelogger.R:9:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_treelogger.R#L9) *warning:* **no visible global function definition for ‘is_clock_model’**
```r
  testit::assert(is_clock_model(clock_model))
                 ^~~~~~~~~~~~~~
```
[R/clock_model_to_xml_treelogger.R:24:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_model_to_xml_treelogger.R#L24) *warning:* **no visible global function definition for ‘is_rln_clock_model’**
```r
    testit::assert(is_rln_clock_model(clock_model))
                   ^~~~~~~~~~~~~~~~~~
```
[R/clock_models_to_xml_operators.R:9:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_models_to_xml_operators.R#L9) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/clock_models_to_xml_state.R:11:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_models_to_xml_state.R#L11) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/clock_models_to_xml_state.R:15:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_models_to_xml_state.R#L15) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/clock_models_to_xml_tracelog.R:15:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_models_to_xml_tracelog.R#L15) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/clock_models_to_xml_tracelog.R:22:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/clock_models_to_xml_tracelog.R#L22) *warning:* **no visible global function definition for ‘is_clock_model’**
```r
    testit::assert(is_clock_model(clock_model))
                   ^~~~~~~~~~~~~~
```
[R/create_beast2_input_1_12.R:39:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_1_12.R#L39) *warning:* **no visible global function definition for ‘are_initial_phylogenies’**
```r
    testit::assert(are_initial_phylogenies(initial_phylogenies))
                   ^~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_beast.R:28:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_beast.R#L28) *warning:* **no visible global function definition for ‘are_site_models’**
```r
  testit::assert(are_site_models(site_models))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_beast.R:29:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_beast.R#L29) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/create_beast2_input_beast.R:30:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_beast.R#L30) *warning:* **no visible global function definition for ‘are_tree_priors’**
```r
  testit::assert(are_tree_priors(tree_priors))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_beast.R:41:11:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_beast.R#L41) *warning:* **no visible global function definition for ‘create_beast2_beast_xml’**
```r
  text <- create_beast2_beast_xml(beast2_version = misc_options$beast2_version)
          ^~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distr.R:22:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L22) *warning:* **no visible global function definition for ‘are_site_models’**
```r
  testit::assert(are_site_models(site_models))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_distr.R:23:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L23) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distr.R:24:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L24) *warning:* **no visible global function definition for ‘are_tree_priors’**
```r
  testit::assert(are_tree_priors(tree_priors))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_distr.R:175:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L175) *warning:* **no visible global function definition for ‘are_mrca_priors’**
```r
    testit::assert(are_mrca_priors(mrca_priors))
                   ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_distr.R:179:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L179) *warning:* **no visible global function definition for ‘is_mrca_prior’**
```r
    testit::assert(is_mrca_prior(mrca_prior))
                   ^~~~~~~~~~~~~
```
[R/create_beast2_input_distr.R:228:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L228) *warning:* **no visible global function definition for ‘is_bd_tree_prior’**
```r
  testit::assert(is_bd_tree_prior(bd_tree_prior))
                 ^~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distr.R:230:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L230) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/create_beast2_input_distr.R:289:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L289) *warning:* **no visible global function definition for ‘is_cbs_tree_prior’**
```r
  testit::assert(is_cbs_tree_prior(cbs_tree_prior))
                 ^~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distr.R:291:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L291) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/create_beast2_input_distr.R:325:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L325) *warning:* **no visible global function definition for ‘is_ccp_tree_prior’**
```r
  testit::assert(is_ccp_tree_prior(ccp_tree_prior))
                 ^~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distr.R:327:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L327) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/create_beast2_input_distr.R:376:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L376) *warning:* **no visible global function definition for ‘is_cep_tree_prior’**
```r
  testit::assert(is_cep_tree_prior(cep_tree_prior))
                 ^~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distr.R:378:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L378) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/create_beast2_input_distr.R:439:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L439) *warning:* **no visible global function definition for ‘is_yule_tree_prior’**
```r
  testit::assert(is_yule_tree_prior(yule_tree_prior))
                 ^~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_distr.R:441:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_distr.R#L441) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/create_beast2_input_init.R:9:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_init.R#L9) *warning:* **no visible global function definition for ‘are_initial_phylogenies’**
```r
  testit::assert(are_initial_phylogenies(initial_phylogenies))
                 ^~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_loggers.R:17:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_loggers.R#L17) *warning:* **no visible global function definition for ‘are_site_models’**
```r
  testit::assert(are_site_models(site_models))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_loggers.R:18:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_loggers.R#L18) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/create_beast2_input_loggers.R:19:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_loggers.R#L19) *warning:* **no visible global function definition for ‘are_tree_priors’**
```r
  testit::assert(are_tree_priors(tree_priors))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_loggers.R:20:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_loggers.R#L20) *warning:* **no visible global function definition for ‘are_mrca_priors’**
```r
  testit::assert(are_mrca_priors(mrca_priors))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_loggers.R:21:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_loggers.R#L21) *warning:* **no visible global function definition for ‘is_mcmc’**
```r
  testit::assert(is_mcmc(mcmc))
                 ^~~~~~~
```
[R/create_beast2_input_loggers.R:97:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_loggers.R#L97) *warning:* **no visible global function definition for ‘is_mcmc’**
```r
  testit::assert(is_mcmc(mcmc))
                 ^~~~~~~
```
[R/create_beast2_input_loggers.R:172:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_loggers.R#L172) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:13:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_operators.R#L13) *warning:* **no visible global function definition for ‘are_site_models’**
```r
  testit::assert(are_site_models(site_models))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:14:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_operators.R#L14) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:15:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_operators.R#L15) *warning:* **no visible global function definition for ‘are_tree_priors’**
```r
  testit::assert(are_tree_priors(tree_priors))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_operators.R:16:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_operators.R#L16) *warning:* **no visible global function definition for ‘are_mrca_priors’**
```r
  testit::assert(are_mrca_priors(mrca_priors))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_run.R:25:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_run.R#L25) *warning:* **no visible global function definition for ‘are_site_models’**
```r
  testit::assert(are_site_models(site_models))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_run.R:26:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_run.R#L26) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/create_beast2_input_run.R:27:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_run.R#L27) *warning:* **no visible global function definition for ‘are_tree_priors’**
```r
  testit::assert(are_tree_priors(tree_priors))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:15:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_state.R#L15) *warning:* **no visible global function definition for ‘are_initial_phylogenies’**
```r
  testit::assert(are_initial_phylogenies(initial_phylogenies))
                 ^~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_beast2_input_state.R:16:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input_state.R#L16) *warning:* **no visible global function definition for ‘are_tree_priors’**
```r
  testit::assert(are_tree_priors(tree_priors))
                 ^~~~~~~~~~~~~~~
```
[R/create_beast2_input.R:45:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input.R#L45) *warning:* **no visible global function definition for ‘is_mrca_prior’**
```r
    testit::assert(is_mrca_prior(mrca_priors[[1]]))
                   ^~~~~~~~~~~~~
```
[R/create_beast2_input.R:126:17:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input.R#L126) *warning:* **no visible global function definition for ‘get_n_taxa’**
```r
      n_taxa <- get_n_taxa(fasta_filename)
                ^~~~~~~~~~
```
[R/create_beast2_input.R:140:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_beast2_input.R#L140) *warning:* **no visible global function definition for ‘are_mrca_priors’**
```r
    testit::assert(are_mrca_priors(mrca_priors))
                   ^~~~~~~~~~~~~~~
```
[R/create_gamma_site_model.R:77:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_gamma_site_model.R#L77) *warning:* **no visible global function definition for ‘is_gamma_site_model’**
```r
  testit::assert(is_gamma_site_model(gamma_site_model))
                 ^~~~~~~~~~~~~~~~~~~
```
[R/create_mcmc.R:41:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_mcmc.R#L41) *warning:* **no visible global function definition for ‘is_mcmc’**
```r
  testit::assert(is_mcmc(mcmc))
                 ^~~~~~~
```
[R/create_mrca_prior.R:63:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_mrca_prior.R#L63) *warning:* **no visible global function definition for ‘is_mrca_prior’**
```r
  testit::assert(is_mrca_prior(mrca_prior))
                 ^~~~~~~~~~~~~
```
[R/create_random.R:60:3:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L60) *warning:* **no visible global function definition for ‘create_cbs_tree_prior’**
```r
  create_cbs_tree_prior()
  ^~~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:333:21:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L333) *warning:* **no visible global function definition for ‘get_taxa_names’**
```r
  all_taxa_names <- get_taxa_names(fasta_filename)
                    ^~~~~~~~~~~~~~
```
[R/create_random.R:356:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L356) *warning:* **no visible global function definition for ‘create_rnd_mrca_prior’**
```r
    create_rnd_mrca_prior(fasta_filename)
    ^~~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:398:3:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L398) *warning:* **no visible global function definition for ‘create_one_div_x_distr’**
```r
  create_one_div_x_distr()
  ^~~~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:407:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L407) *warning:* **no visible global function definition for ‘create_alpha_param’**
```r
    create_alpha_param()
    ^~~~~~~~~~~~~~~~~~
```
[R/create_random.R:409:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L409) *warning:* **no visible global function definition for ‘create_beta_param’**
```r
    create_beta_param()
    ^~~~~~~~~~~~~~~~~
```
[R/create_random.R:411:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L411) *warning:* **no visible global function definition for ‘create_clock_rate_param’**
```r
    create_clock_rate_param()
    ^~~~~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:413:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L413) *warning:* **no visible global function definition for ‘create_kappa_1_param’**
```r
    create_kappa_1_param()
    ^~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:415:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L415) *warning:* **no visible global function definition for ‘create_kappa_2_param’**
```r
    create_kappa_2_param()
    ^~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:417:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L417) *warning:* **no visible global function definition for ‘create_lambda_param’**
```r
    create_lambda_param()
    ^~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:419:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L419) *warning:* **no visible global function definition for ‘create_m_param’**
```r
    create_m_param()
    ^~~~~~~~~~~~~~
```
[R/create_random.R:421:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L421) *warning:* **no visible global function definition for ‘create_mean_param’**
```r
    create_mean_param()
    ^~~~~~~~~~~~~~~~~
```
[R/create_random.R:423:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L423) *warning:* **no visible global function definition for ‘create_mu_param’**
```r
    create_mu_param()
    ^~~~~~~~~~~~~~~
```
[R/create_random.R:425:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L425) *warning:* **no visible global function definition for ‘create_rate_ac_param’**
```r
    create_rate_ac_param()
    ^~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:427:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L427) *warning:* **no visible global function definition for ‘create_rate_ag_param’**
```r
    create_rate_ag_param()
    ^~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:429:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L429) *warning:* **no visible global function definition for ‘create_rate_at_param’**
```r
    create_rate_at_param()
    ^~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:431:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L431) *warning:* **no visible global function definition for ‘create_rate_cg_param’**
```r
    create_rate_cg_param()
    ^~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:433:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L433) *warning:* **no visible global function definition for ‘create_rate_ct_param’**
```r
    create_rate_ct_param()
    ^~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:435:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L435) *warning:* **no visible global function definition for ‘create_rate_gt_param’**
```r
    create_rate_gt_param()
    ^~~~~~~~~~~~~~~~~~~~
```
[R/create_random.R:437:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L437) *warning:* **no visible global function definition for ‘create_s_param’**
```r
    create_s_param()
    ^~~~~~~~~~~~~~
```
[R/create_random.R:439:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L439) *warning:* **no visible global function definition for ‘create_scale_param’**
```r
    create_scale_param()
    ^~~~~~~~~~~~~~~~~~
```
[R/create_random.R:442:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_random.R#L442) *warning:* **no visible global function definition for ‘create_sigma_param’**
```r
    create_sigma_param()
    ^~~~~~~~~~~~~~~~~~
```
[R/create_site_model.R:76:3:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/create_site_model.R#L76) *warning:* **no visible global function definition for ‘check_gamma_site_model’**
```r
  check_gamma_site_model(gamma_site_model)
  ^~~~~~~~~~~~~~~~~~~~~~
```
[R/distr_to_xml.R:39:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L39) *warning:* **no visible global function definition for ‘is_uniform_distr’**
```r
    testit::assert(is_uniform_distr(distr))
                   ^~~~~~~~~~~~~~~~
```
[R/distr_to_xml.R:54:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L54) *warning:* **no visible global function definition for ‘is_beta_distr’**
```r
  testit::assert(is_beta_distr(distr))
                 ^~~~~~~~~~~~~
```
[R/distr_to_xml.R:56:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L56) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/distr_to_xml.R:84:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L84) *warning:* **no visible global function definition for ‘is_exp_distr’**
```r
  testit::assert(is_exp_distr(distr))
                 ^~~~~~~~~~~~
```
[R/distr_to_xml.R:86:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L86) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/distr_to_xml.R:109:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L109) *warning:* **no visible global function definition for ‘is_gamma_distr’**
```r
  testit::assert(is_gamma_distr(distr))
                 ^~~~~~~~~~~~~~
```
[R/distr_to_xml.R:111:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L111) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/distr_to_xml.R:140:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L140) *warning:* **no visible global function definition for ‘is_inv_gamma_distr’**
```r
  testit::assert(is_inv_gamma_distr(distr))
                 ^~~~~~~~~~~~~~~~~~
```
[R/distr_to_xml.R:142:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L142) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/distr_to_xml.R:171:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L171) *warning:* **no visible global function definition for ‘is_laplace_distr’**
```r
  testit::assert(is_laplace_distr(distr))
                 ^~~~~~~~~~~~~~~~
```
[R/distr_to_xml.R:173:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L173) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/distr_to_xml.R:201:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L201) *warning:* **no visible global function definition for ‘is_log_normal_distr’**
```r
  testit::assert(is_log_normal_distr(distr))
                 ^~~~~~~~~~~~~~~~~~~
```
[R/distr_to_xml.R:203:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L203) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/distr_to_xml.R:233:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L233) *warning:* **no visible global function definition for ‘is_normal_distr’**
```r
  testit::assert(is_normal_distr(distr))
                 ^~~~~~~~~~~~~~~
```
[R/distr_to_xml.R:235:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L235) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/distr_to_xml.R:264:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L264) *warning:* **no visible global function definition for ‘is_one_div_x_distr’**
```r
  testit::assert(is_one_div_x_distr(distr))
                 ^~~~~~~~~~~~~~~~~~
```
[R/distr_to_xml.R:266:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L266) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/distr_to_xml.R:282:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L282) *warning:* **no visible global function definition for ‘is_poisson_distr’**
```r
  testit::assert(is_poisson_distr(distr))
                 ^~~~~~~~~~~~~~~~
```
[R/distr_to_xml.R:284:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L284) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/distr_to_xml.R:308:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L308) *warning:* **no visible global function definition for ‘is_uniform_distr’**
```r
  testit::assert(is_uniform_distr(distr))
                 ^~~~~~~~~~~~~~~~
```
[R/distr_to_xml.R:310:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/distr_to_xml.R#L310) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/fastas_to_phylos.R:42:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/fastas_to_phylos.R#L42) *warning:* **no visible global function definition for ‘fasta_to_phylo’**
```r
    phylos[[i]] <- fasta_to_phylo(fasta_filename, crown_age)
                   ^~~~~~~~~~~~~~
```
[R/gamma_site_model_to_xml_prior_distr.R:9:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/gamma_site_model_to_xml_prior_distr.R#L9) *warning:* **no visible global function definition for ‘is_site_model’**
```r
  testit::assert(is_site_model(site_model))
                 ^~~~~~~~~~~~~
```
[R/gamma_site_model_to_xml_prior_distr.R:11:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/gamma_site_model_to_xml_prior_distr.R#L11) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/gamma_site_model_to_xml_state.R:13:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/gamma_site_model_to_xml_state.R#L13) *warning:* **no visible global function definition for ‘is_gamma_site_model’**
```r
  testit::assert(is_gamma_site_model(gamma_site_model))
                 ^~~~~~~~~~~~~~~~~~~
```
[R/gamma_site_model_to_xml_state.R:14:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/gamma_site_model_to_xml_state.R#L14) *warning:* **no visible global function definition for ‘is_id’**
```r
  testit::assert(is_id(id))
                 ^~~~~
```
[R/get_alignment_ids.R:16:22:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_alignment_ids.R#L16) *warning:* **no visible binding for global variable ‘get_alignment_id’**
```r
  unlist(lapply(ids, get_alignment_id))
                     ^~~~~~~~~~~~~~~~
```
[R/get_clock_model_name.R:17:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_clock_model_name.R#L17) *warning:* **no visible global function definition for ‘is_rln_clock_model’**
```r
    testit::assert(is_rln_clock_model(clock_model))
                   ^~~~~~~~~~~~~~~~~~
```
[R/get_clock_models_ids.R:8:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_clock_models_ids.R#L8) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/get_distr_n_params.R:65:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_distr_n_params.R#L65) *warning:* **no visible global function definition for ‘is_uniform_distr’**
```r
    testit::assert(is_uniform_distr(distr))
                   ^~~~~~~~~~~~~~~~
```
[R/get_gamma_site_model_n_distrs.R:20:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_gamma_site_model_n_distrs.R#L20) *warning:* **no visible global function definition for ‘is_gamma_site_model’**
```r
  testit::assert(is_gamma_site_model(gamma_site_model))
                 ^~~~~~~~~~~~~~~~~~~
```
[R/get_gamma_site_model_n_params.R:28:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_gamma_site_model_n_params.R#L28) *warning:* **no visible global function definition for ‘is_gamma_site_model’**
```r
  testit::assert(is_gamma_site_model(gamma_site_model))
                 ^~~~~~~~~~~~~~~~~~~
```
[R/get_gamma_site_model_n_params.R:32:5:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_gamma_site_model_n_params.R#L32) *warning:* **no visible global function definition for ‘get_distr_n_params’**
```r
    get_distr_n_params(gamma_site_model$gamma_shape_prior_distr)
    ^~~~~~~~~~~~~~~~~~
```
[R/get_has_non_strict_clock_model.R:7:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_has_non_strict_clock_model.R#L7) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/get_site_model_n_distrs.R:33:32:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_site_model_n_distrs.R#L33) *warning:* **no visible global function definition for ‘get_gamma_site_model_n_distrs’**
```r
  gamma_site_model_n_distrs <- get_gamma_site_model_n_distrs(gamma_site_model)
                               ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/get_site_model_n_distrs.R:41:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_site_model_n_distrs.R#L41) *warning:* **no visible global function definition for ‘is_tn93_site_model’**
```r
    testit::assert(is_tn93_site_model(site_model))
                   ^~~~~~~~~~~~~~~~~~
```
[R/get_site_model_n_params.R:50:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_site_model_n_params.R#L50) *warning:* **no visible global function definition for ‘is_tn93_site_model’**
```r
    testit::assert(is_tn93_site_model(site_model))
                   ^~~~~~~~~~~~~~~~~~
```
[R/get_site_models_n_distrs.R:27:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_site_models_n_distrs.R#L27) *warning:* **no visible global function definition for ‘is_site_model’**
```r
    testit::assert(is_site_model(site_model))
                   ^~~~~~~~~~~~~
```
[R/get_site_models_n_params.R:27:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_site_models_n_params.R#L27) *warning:* **no visible global function definition for ‘is_site_model’**
```r
    testit::assert(is_site_model(site_model))
                   ^~~~~~~~~~~~~
```
[R/get_tree_prior_n_distrs.R:46:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_tree_prior_n_distrs.R#L46) *warning:* **no visible global function definition for ‘is_yule_tree_prior’**
```r
    testit::assert(is_yule_tree_prior(tree_prior))
                   ^~~~~~~~~~~~~~~~~~
```
[R/get_tree_prior_n_params.R:48:12:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_tree_prior_n_params.R#L48) *warning:* **no visible global function definition for ‘get_distr_n_params’**
```r
    return(get_distr_n_params(tree_prior$pop_size_distr))
           ^~~~~~~~~~~~~~~~~~
```
[R/get_tree_prior_n_params.R:55:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_tree_prior_n_params.R#L55) *warning:* **no visible global function definition for ‘is_yule_tree_prior’**
```r
    testit::assert(is_yule_tree_prior(tree_prior))
                   ^~~~~~~~~~~~~~~~~~
```
[R/get_tree_priors_n_distrs.R:22:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_tree_priors_n_distrs.R#L22) *warning:* **no visible global function definition for ‘is_tree_prior’**
```r
    testit::assert(is_tree_prior(tree_prior))
                   ^~~~~~~~~~~~~
```
[R/get_tree_priors_n_distrs.R:23:14:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_tree_priors_n_distrs.R#L23) *warning:* **no visible global function definition for ‘get_tree_prior_n_distrs’**
```r
    n <- n + get_tree_prior_n_distrs(tree_prior)
             ^~~~~~~~~~~~~~~~~~~~~~~
```
[R/get_tree_priors_n_params.R:23:14:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_tree_priors_n_params.R#L23) *warning:* **no visible global function definition for ‘get_tree_prior_n_params’**
```r
    n <- n + get_tree_prior_n_params(tree_prior)
             ^~~~~~~~~~~~~~~~~~~~~~~
```
[R/get_unlinked_clock_models.R:6:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_unlinked_clock_models.R#L6) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/get_unlinked_clock_models.R:17:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_unlinked_clock_models.R#L17) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(results))
                 ^~~~~~~~~~~~~~~~
```
[R/get_unlinked_site_models.R:6:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_unlinked_site_models.R#L6) *warning:* **no visible global function definition for ‘are_site_models’**
```r
  testit::assert(are_site_models(site_models))
                 ^~~~~~~~~~~~~~~
```
[R/get_unlinked_site_models.R:17:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_unlinked_site_models.R#L17) *warning:* **no visible global function definition for ‘are_site_models’**
```r
  testit::assert(are_site_models(results))
                 ^~~~~~~~~~~~~~~
```
[R/get_unlinked_tree_priors.R:6:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_unlinked_tree_priors.R#L6) *warning:* **no visible global function definition for ‘are_tree_priors’**
```r
  testit::assert(are_tree_priors(tree_priors))
                 ^~~~~~~~~~~~~~~
```
[R/get_unlinked_tree_priors.R:17:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/get_unlinked_tree_priors.R#L17) *warning:* **no visible global function definition for ‘are_tree_priors’**
```r
  testit::assert(are_tree_priors(results))
                 ^~~~~~~~~~~~~~~
```
[R/has_xml_opening_tag.R:19:10:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/has_xml_opening_tag.R#L19) *warning:* **no visible global function definition for ‘find_first_xml_opening_tag_line’**
```r
  !is.na(find_first_xml_opening_tag_line(lines, section))
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/init_clock_models.R:15:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_clock_models.R#L15) *warning:* **no visible global function definition for ‘are_clock_models’**
```r
  testit::assert(are_clock_models(clock_models))
                 ^~~~~~~~~~~~~~~~
```
[R/init_clock_models.R:22:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_clock_models.R#L22) *warning:* **no visible global function definition for ‘is_clock_model’**
```r
    testit::assert(is_clock_model(clock_model))
                   ^~~~~~~~~~~~~~
```
[R/init_clock_models.R:45:22:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_clock_models.R#L45) *warning:* **no visible global function definition for ‘is_strict_clock_model’**
```r
      testit::assert(is_strict_clock_model(clock_model))
                     ^~~~~~~~~~~~~~~~~~~~~
```
[R/init_clock_models.R:78:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_clock_models.R#L78) *warning:* **no visible global function definition for ‘is_rln_clock_model’**
```r
  testit::assert(is_rln_clock_model(rln_clock_model))
                 ^~~~~~~~~~~~~~~~~~
```
[R/init_clock_models.R:85:26:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_clock_models.R#L85) *warning:* **no visible global function definition for ‘get_distr_n_params’**
```r
  param_id <- param_id + get_distr_n_params(ucldstdev_distr)
                         ^~~~~~~~~~~~~~~~~~
```
[R/init_clock_models.R:92:26:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_clock_models.R#L92) *warning:* **no visible global function definition for ‘get_distr_n_params’**
```r
  param_id <- param_id + get_distr_n_params(mean_rate_prior_distr)
                         ^~~~~~~~~~~~~~~~~~
```
[R/init_clock_models.R:125:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_clock_models.R#L125) *warning:* **no visible global function definition for ‘is_strict_clock_model’**
```r
  testit::assert(is_strict_clock_model(strict_clock_model))
                 ^~~~~~~~~~~~~~~~~~~~~
```
[R/init_distr.R:14:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_distr.R#L14) *warning:* **no visible global function definition for ‘is_distr’**
```r
  testit::assert(is_distr(distr))
                 ^~~~~~~~
```
[R/init_distr.R:100:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_distr.R#L100) *warning:* **no visible global function definition for ‘is_uniform_distr’**
```r
    testit::assert(is_uniform_distr(distr))
                   ^~~~~~~~~~~~~~~~
```
[R/init_gamma_site_model.R:20:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_gamma_site_model.R#L20) *warning:* **no visible global function definition for ‘is_gamma_site_model’**
```r
  testit::assert(is_gamma_site_model(gamma_site_model))
                 ^~~~~~~~~~~~~~~~~~~
```
[R/init_gamma_site_model.R:33:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_gamma_site_model.R#L33) *warning:* **no visible global function definition for ‘is_gamma_site_model’**
```r
  testit::assert(is_gamma_site_model(gamma_site_model))
                 ^~~~~~~~~~~~~~~~~~~
```
[R/init_mrca_priors.R:14:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_mrca_priors.R#L14) *warning:* **no visible global function definition for ‘are_mrca_priors’**
```r
  testit::assert(are_mrca_priors(mrca_priors))
                 ^~~~~~~~~~~~~~~
```
[R/init_mrca_priors.R:19:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_mrca_priors.R#L19) *warning:* **no visible global function definition for ‘is_mrca_prior’**
```r
    testit::assert(is_mrca_prior(mrca_prior))
                   ^~~~~~~~~~~~~
```
[R/init_mrca_priors.R:37:30:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_mrca_priors.R#L37) *warning:* **no visible global function definition for ‘get_distr_n_params’**
```r
      param_id <- param_id + get_distr_n_params(mrca_prior$mrca_distr)
                             ^~~~~~~~~~~~~~~~~~
```
[R/init_mrca_priors.R:40:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_mrca_priors.R#L40) *warning:* **no visible global function definition for ‘is_mrca_prior’**
```r
    testit::assert(is_mrca_prior(mrca_prior))
                   ^~~~~~~~~~~~~
```
[R/init_param.R:13:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_param.R#L13) *warning:* **no visible global function definition for ‘is_param’**
```r
  testit::assert(is_param(param))
                 ^~~~~~~~
```
[R/init_site_models.R:14:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_site_models.R#L14) *warning:* **no visible global function definition for ‘are_site_models’**
```r
  testit::assert(are_site_models(site_models))
                 ^~~~~~~~~~~~~~~
```
[R/init_site_models.R:19:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_site_models.R#L19) *warning:* **no visible global function definition for ‘is_site_model’**
```r
    testit::assert(is_site_model(site_model))
                   ^~~~~~~~~~~~~
```
[R/init_site_models.R:42:22:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_site_models.R#L42) *warning:* **no visible global function definition for ‘is_tn93_site_model’**
```r
      testit::assert(is_tn93_site_model(site_model))
                     ^~~~~~~~~~~~~~~~~~
```
[R/init_site_models.R:54:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_site_models.R#L54) *warning:* **no visible global function definition for ‘is_init_site_model’**
```r
    testit::assert(is_init_site_model(site_model)) # Not yet
                   ^~~~~~~~~~~~~~~~~~
```
[R/init_site_models.R:74:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_site_models.R#L74) *warning:* **no visible global function definition for ‘is_gtr_site_model’**
```r
  testit::assert(is_gtr_site_model(gtr_site_model))
                 ^~~~~~~~~~~~~~~~~
```
[R/init_site_models.R:207:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_site_models.R#L207) *warning:* **no visible global function definition for ‘is_hky_site_model’**
```r
  testit::assert(is_hky_site_model(hky_site_model))
                 ^~~~~~~~~~~~~~~~~
```
[R/init_site_models.R:259:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_site_models.R#L259) *warning:* **no visible global function definition for ‘is_jc69_site_model’**
```r
  testit::assert(is_jc69_site_model(jc69_site_model))
                 ^~~~~~~~~~~~~~~~~~
```
[R/init_site_models.R:299:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_site_models.R#L299) *warning:* **no visible global function definition for ‘is_tn93_site_model’**
```r
  testit::assert(is_tn93_site_model(tn93_site_model))
                 ^~~~~~~~~~~~~~~~~~
```
[R/init_tree_priors.R:14:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_tree_priors.R#L14) *warning:* **no visible global function definition for ‘are_tree_priors’**
```r
  testit::assert(are_tree_priors(tree_priors))
                 ^~~~~~~~~~~~~~~
```
[R/init_tree_priors.R:18:20:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_tree_priors.R#L18) *warning:* **no visible global function definition for ‘is_tree_prior’**
```r
    testit::assert(is_tree_prior(tree_prior))
                   ^~~~~~~~~~~~~
```
[R/init_tree_priors.R:41:22:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_tree_priors.R#L41) *warning:* **no visible global function definition for ‘is_yule_tree_prior’**
```r
      testit::assert(is_yule_tree_prior(tree_prior))
                     ^~~~~~~~~~~~~~~~~~
```
[R/init_tree_priors.R:48:28:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_tree_priors.R#L48) *warning:* **no visible global function definition for ‘get_tree_prior_n_distrs’**
```r
    distr_id <- distr_id + get_tree_prior_n_distrs(tree_prior)
                           ^~~~~~~~~~~~~~~~~~~~~~~
```
[R/init_tree_priors.R:49:28:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_tree_priors.R#L49) *warning:* **no visible global function definition for ‘get_tree_prior_n_params’**
```r
    param_id <- param_id + get_tree_prior_n_params(tree_prior)
                           ^~~~~~~~~~~~~~~~~~~~~~~
```
[R/init_tree_priors.R:66:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_tree_priors.R#L66) *warning:* **no visible global function definition for ‘is_bd_tree_prior’**
```r
  testit::assert(is_bd_tree_prior(bd_tree_prior))
                 ^~~~~~~~~~~~~~~~
```
[R/init_tree_priors.R:94:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_tree_priors.R#L94) *warning:* **no visible global function definition for ‘is_ccp_tree_prior’**
```r
  testit::assert(is_ccp_tree_prior(ccp_tree_prior))
                 ^~~~~~~~~~~~~~~~~
```
[R/init_tree_priors.R:115:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_tree_priors.R#L115) *warning:* **no visible global function definition for ‘is_cep_tree_prior’**
```r
  testit::assert(is_cep_tree_prior(cep_tree_prior))
                 ^~~~~~~~~~~~~~~~~
```
[R/init_tree_priors.R:146:18:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/init_tree_priors.R#L146) *warning:* **no visible global function definition for ‘is_yule_tree_prior’**
```r
  testit::assert(is_yule_tree_prior(yule_tree_prior))
                 ^~~~~~~~~~~~~~~~~~
```
[R/is_clock_model_name.R:10:13:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/is_clock_model_name.R#L10) *warning:* **no visible global function definition for ‘get_clock_model_names’**
```r
  name %in% get_clock_model_names()
            ^~~~~~~~~~~~~~~~~~~~~
```
[R/is_clock_model.R:11:7:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/is_clock_model.R#L11) *warning:* **no visible global function definition for ‘is_rln_clock_model’**
```r
  if (is_rln_clock_model(x)) return(TRUE)
      ^~~~~~~~~~~~~~~~~~
```
[R/is_clock_model.R:12:7:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/is_clock_model.R#L12) *warning:* **no visible global function definition for ‘is_strict_clock_model’**
```r
  if (is_strict_clock_model(x)) return(TRUE)
      ^~~~~~~~~~~~~~~~~~~~~
```
[R/is_clock_model.R:68:8:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/is_clock_model.R#L68) *warning:* **no visible global function definition for ‘is_param’**
```r
  if (!is_param(x$clock_rate_param)) return(FALSE)
       ^~~~~~~~
```
[R/is_clock_model.R:70:8:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/is_clock_model.R#L70) *warning:* **no visible global function definition for ‘is_distr’**
```r
  if (!is_distr(x$clock_rate_distr)) return(FALSE)
       ^~~~~~~~
```
[R/is_default_mcmc.R:15:8:](https://github.com/richelbilderbeek/beautier/blob/91ff169ee139bccd40871416113f7b9ef9b38c2c/R/is_default_mcmc.R#L15) *warning:* **no visible global function definition for ‘is_mcmc’**
```r
  if (!is_mcmc(mcmc)) return(FALSE)
       ^~~~~~~
```


解决冲突


stagingRules改成ruleItems


content改成scan，别问我为什么


@mjbvz can we try to avoid using `!`, isn't that like using `any`?


This is a small utility that I find very useful when creating new datasets for the unit test. Also, since MSFCustomConcepts.xml and CIELConcepts.xml are essentially datasets, this utility can also be used to help with adding data to those files. No one is just "committing things". Please pay attention to you language.


It looks like LongDelays is set, which seems to imply that timeouts can take up to 7 seconds to be received so your code is going to have to handle not getting replies period (because waiting for 7 seconds for shit to happen is like infinity in internet time).


forgot to mention this affects #53


这个方法实现了什么？取这个名字的原因是什么


Ok, I am aware and see your contributions. These contributions are really awesome (my personal idea). But, please add the only comments for this kind of issues. I'll consider your comment after I've finished everything about the issue. You can be sure about that ;) I am happy to be on the same team with @tandraschko and @Rapster ;)

I can add your fixes now. Thanks a lot ;)


This is an error. `bundle-{ chan }` is read only channel.


第二个if有必要存在吗？


This leaves 2 unbalanced `[`, and does not say what the effect of setting the parameter is.


I have never seen a Blu-Ray drive connected through pata / IDE, is that possible?

More generally speaking, this should be reworked to behave like the `ahci` driver, which actually queries the drive for the size.


里面是append，方法签名却是setXXX，滑天下之大稽也


在何处引用了该方法？


kk


Que bien q programas amigo. vos cursaste con nestor no?


注释不对


改成isRuleNameExist


I m trying to install ZohoDeskPortalSDK pod but getting "Unable to find a specification for `ZohoDeskPortalSDK (~> 0.2.0)" error message.


Jetzt versteh ich, du meinst "tabbing".. da fehlt noch ein zweites "b". 😅


FL_MONSTER установлен у заложников. хотя можно пользоваться этим флагом так как заложники не могут нанести урон.


确定起止位置，不是确定起始位置


The parameter is called `is_read` in the preceding comment and also in the implementation, not `is_created`.

I’d move the new parameter before `mode`, because in that way many callers could still keep using the default parameter for `mode`.

Even better could be to pass a file handle instead of a `bool`, so that in a future code refactoring, the `space->chain.start->handle` can be immediately initialized with the already opened file handle.

I am not requesting that initialization in this version, because it would require some extra logic to make sure that the file will be opened in the same way, and also some changes around `fil_node_open_file()`. I am only suggesting that we could use `pfs_os_file_t` instead of `bool` for the parameter.


Successfully aliased the URL <https://simple-now-app-owlktdkhkt.now.sh> to the following alias.

* https://akurulk-2232-simple-now-app-dsds.now.sh


@dmiller423 This is an external file (from https://github.com/rtissera/libchdr) which we shouldn't change. The change should be done upstream.


![](https://github.trello.services/images/mini-trello-icon.png) [Create a first Waypoint saver and Loader](https://trello.com/c/WqHj5R7l/5-create-a-first-waypoint-saver-and-loader)


Make sense. But  IPricingDocumentChangesProvider. GetDomumentChanges implementation  should returns both combined changes one from change log, other from pricing table depends on calendar dates


Remove this


@Giappo: I see there is an error as well. The [Travis build log](https://travis-ci.org/richelbilderbeek/razzo/jobs/448394437#L1792) states:

```
Codoc mismatches from documentation object 'default_params_doc':
default_params_doc
  Code: function(alignment, bd_mutation_rate, bd_tree
                 bd_tree_filename, chain_length, clock_model
                 crown_age, fasta_filename, folder_name
                 init_speciation_rate, init_extinction_rate, lambda
                 mbd_l_matrix, mbd_mutation_rate, mbd_tree, mu
                 mutation_rate, nu, parameters, parameter_filename
                 parameters_filename, posterior_trees
                 project_folder_name, q, sample_interval, seed
                 sequence_length, sim_pars, sim_phylo, site_model
                 sub_chain_length, tree, tree_filename, trees_filename
                 verbose)
  Docs: function(alignment, bd_mutation_rate, bd_tree
                 bd_tree_filename, chain_length, crown_age
```

Solution: press 'Document' :+1:


I am glad to receive your reply, first of all thank you for your guidance information about you mentioned, let me see this is based on skin color detection as the background, and then, I consult a lot of data is one of the most these is about a deep learning of neural network architecture based on Caffe, the current popular algorithm, this Coffe algorithm is based on GPU, but I want to achieve it by FPAG, containing convolution layer, pooling layer, the connection layer, the inside of the matrix calculation is in accordance with the FPGA to complete.Finally, I would like to evaluate, and in doing so, my understanding of the logical resources used by the FPGA, as well as the DSP.I'm going to use Xilinx ® xc7vx690tffg1927-1 chip, do you think this is feasible?