ropensci / beautier

Compare 7387feb ... +1 ... 3788ead

100.00% ø ø

Overview Diff Coverage Changes Files Commits
Coverage Reach
parameter_to_xml.R init_site_models.R create_beast2_input_distr.R distr_to_xml.R create_distr.R site_model_to_xml_subst_model.R create_param.R init_clock_models.R init_tree_priors.R create_site_model.R tree_prior_to_xml_operators.R check_clock_model.R are_equivalent_xmls.R is_distr.R create_tracelog_xml.R site_model_to_xml_prior.R site_model_to_xml_operators.R site_model_to_xml_state.R init_distr.R create_beast2_input_run.R clock_model_to_xml_operators.R clock_model_to_xml_lh_distr.R is_param.R create_beast2_input_file.R is_site_model.R create_beast2_input.R is_init_distr.R create_clock_model.R mrca_prior_to_xml_prior_distr.R check_inference_model.R create_tree_prior.R mcmc_to_xml_run.R check_mcmc.R is_init_site_model.R check_gamma_site_model.R site_model_to_xml_lh_distr.R tree_prior_to_xml_state.R create_beast2_input_beast.R create_screenlog_xml.R create_beast2_input_state.R taxa_to_xml_tree.R mrca_prior_to_xml_lh_distr.R is_tree_prior.R init_inference_model.R clock_model_to_xml_prior_distr.R site_model_to_xml_tracelog.R get_site_model_n_params.R check_beauti_options.R check_file_and_model_agree.R tree_prior_to_xml_tracelog.R extract_xml_section_from_lines.R get_distr_n_params.R is_init_tree_prior.R init_mrca_priors.R create_beast2_input_from_model.R create_beast2_input_data.R create_beast2_input_operators.R are_equal_xml_lines.R create_treelog_xml.R clock_model_to_xml_state.R check_mrca_prior.R create_beast2_input_file_from_model.R create_beast2_input_data_sequences.R clock_models_to_xml_state.R get_param_names.R create_beast2_beast_xml.R create_beast2_input_map.R check_screenlog.R check_tracelog.R check_treelog.R get_tree_prior_n_params.R gamma_site_model_to_xml_prior_distr.R create_gamma_site_model.R clock_model_to_xml_treelogger.R mrca_prior_to_xml_tracelog.R check_clock_models.R clock_model_to_xml_tracelog.R check_mcmc_nested_sampling.R is_init_clock_model.R mrca_priors_to_xml_distr.R create_mcmc_nested_sampling.R check_alignment_id.R tree_prior_to_xml_prior_distr.R rnd_phylo_xml_init.R get_site_model_n_distrs.R tree_priors_to_xml_operators.R is_mcmc.R get_tree_prior_n_distrs.R are_equal_xml_files.R rln_clock_model_to_xml_mean_rate_prior.R get_operator_id_pre.R freq_equilibrium_to_xml.R check_file_exists.R clock_models_to_xml_tracelog.R create_loggers_xml.R mrca_prior_to_xml_taxonset.R interspace.R create_mcmc.R gamma_site_model_to_xml_state.R mrca_prior_to_xml_state.R is_clock_model.R remove_multiline.R clock_models_to_xml_operators.R fasta_to_sequences.R init_gamma_site_model.R create_beast2_input_init.R clock_models_to_xml_prior_distr.R create_inference_model.R fastas_to_phylos.R mrca_priors_to_xml_state.R are_equal_mcmcs.R are_mrca_taxon_names_in_fasta.R mrca_priors_to_xml_tracelog.R are_clock_models.R create_test_mcmc.R are_equal_tracelogs.R are_equal_treelogs.R check_mrca_prior_name.R is_xml.R are_equal_screenlogs.R create_mrca_prior.R create_test_ns_inference_model.R create_beauti_options.R fasta_to_phylo.R is_init_mrca_prior.R are_mrca_priors.R check_store_every.R create_site_model_from_name.R create_test_inference_model.R create_treelog.R create_tracelog.R create_trait_set_string.R tree_models_to_xml_tracelog.R indent.R find_clock_model.R init_mrca_prior.R create_test_ns_mcmc.R create_screenlog.R has_xml_short_closing_tag.R has_xml_opening_tag.R is_mrca_align_id_in_fasta.R get_site_models_n_distrs.R get_site_models_n_params.R is_mrca_align_ids_in_fastas.R extract_xml_operators_from_lines.R get_tree_priors_n_distrs.R check_mrca_prior_taxa_names.R get_n_taxa.R check_tree_prior.R check_site_model.R get_crown_age.R compare_lines.R create_data_xml.R create_tree_priors.R are_tree_priors.R are_ids.R get_clock_models_ids.R get_tree_prior_names.R are_fasta_filenames.R site_models_to_xml_state.R create_test_treelog.R create_test_tracelog.R create_test_screenlog.R is_inference_model.R is_mrca_prior.R site_models_to_xml_prior_distr.R gamma_site_models_to_xml_prior_distr.R get_tree_priors_n_params.R check_site_models.R is_one_int.R check_tree_priors.R tree_priors_to_xml_state.R has_xml_closing_tag.R is_in_patterns.R find_first_regex_line.R check_log_mode.R get_xml_closing_tag.R find_last_regex_line.R tree_priors_to_xml_distr.R check_phylogeny.R get_alignment_ids.R create_site_models_from_names.R get_xml_opening_tag.R site_models_to_xml_operators.R is_one_double.R check_log_sort.R are_site_models.R create_site_models.R get_alignment_id.R tree_priors_to_xml_tracelog.R create_clock_models_from_names.R get_has_non_strict_clock_model.R is_gamma_site_model.R get_log_modes.R get_gamma_site_model_n_distrs.R remove_empty_lines.R create_temp_screenlog_filename.R get_clock_model_name.R check_inference_models.R get_beautier_path.R are_init_tree_priors.R are_init_mrca_priors.R is_init_gamma_site_model.R create_temp_treelog_filename.R are_init_clock_models.R create_temp_tracelog_filename.R phylo_to_xml_state.R is_beauti_options.R site_models_to_xml_tracelog.R get_log_sorts.R extract_xml_loggers_from_lines.R count_trailing_spaces.R create_clock_model_from_name.R are_init_site_models.R are_mrca_align_ids_in_fasta.R init_param.R get_gamma_site_model_n_params.R get_distr_names.R is_mrca_prior_with_distr.R get_beautier_paths.R is_init_param.R create_clock_models.R find_first_xml_opening_tag_line.R check_is_monophyletic.R has_mrca_prior.R get_taxa_names.R find_last_xml_closing_tag_line.R is_one_na.R is_default_mcmc.R create_beast2_input_xml.R is_site_model_name.R get_clock_model_names.R is_distr_name.R is_param_name.R is_phylo.R is_freq_equilibrium_name.R is_tree_prior_name.R get_site_model_names.R get_freq_equilibrium_names.R get_test_filenames.R is_id.R get_file_base_sans_ext.R is_one_bool.R is_clock_model_name.R

No flags found

Use flags to group coverage reports by test type, project and/or folders.
Then setup custom commit statuses and notifications for each flag.

e.g., #unittest #integration

#production #enterprise

#frontend #backend

Learn more about Codecov Flags here.

1 untracked files changed.
Other files ignored by Codecov
.travis.yml has changed.

No tracked files changed.

Everything is accounted for!

No changes detected that need to be reviewed.
What changes does Codecov check for?
Lines, not adjusted in diff, that have changed coverage data.
Files that introduced coverage data that had none before.
Files that have missing coverage data that once were tracked.

3 Commits

Richel Bilderbeek
100.00% ø ø
Merge branch 'develop'
richelbilderbeek
3788ead
CI Failed
Hiding 1 contexual commits
Richel Bilderbeek
100.00% ø ø
lint only one branch
richelbilderbeek
9ec5b3a
CI Passed
Richel Bilderbeek
100.00% ø ø
Merge branch 'develop'
richelbilderbeek
7387feb
CI Passed
Files Coverage
R 100.00%
Project Totals (244 files) 100.00%
Loading