Merge pull request #55 from InsightRX/split-off-pharmr

Remove pharmr/pharmpy functionality into its own repository

Author: roninsightrx

.github/workflows/R-CMD-check.yaml

@@ -50,18 +50,13 @@ jobs:
           pak-version: devel
           extra-packages: |
             any::rcmdcheck
-            cran/lotri
-            cran/rxode2
-            cran/nlmixr2est
-            cran/nlmixr2extra
-            cran/nlmixr2plot
             pharmpy/pharmr
           needs: check
 
       - name: Install pharmpy
         run: pharmr::install_pharmpy()
         shell: Rscript {0}
-          
+        
       - uses: r-lib/actions/check-r-package@v2
         with:
           args: 'c("--no-manual", "--as-cran")'

DESCRIPTION

@@ -13,31 +13,35 @@ Imports:
     purrr,
     glue,
     rlang,
-    withr,
     lubridate, 
-    pharmr, 
+    pharmr,
+    pharmr.extra,
+    irxutils,
     yaml, 
     stringr,
     cli, 
     cachem,
-    vpc,
     stats,
     job,
-    diffr,
-    rstudioapi,
-    altair
+    diffr
 Suggests: 
     httr,
     ellmer,
     nlmixr2,
     ggplot2,
     xpose,
+    vpc,
     patchwork,
     testthat (>= 3.0.0),
     mockery,
     knitr,
     rmarkdown,
-    Rapp
+    Rapp,
+    withr,
+    rstudioapi
+Remotes:
+    InsightRX/irxutils,
+    InsightRX/pharmr.extra
 License: MIT + file LICENSE
 URL: https://github.com/InsightRX/uno, https://insightrx.github.io/uno/, https://insightrx.github.io/luna/
 LazyData: TRUE

NAMESPACE

@@ -1,43 +1,8 @@
 # Generated by roxygen2: do not edit by hand
 
 S3method(print,luna.run_table)
-S3method(print,pharmpy.workflows.results.ModelfitResults)
-export(add_covariates_to_model)
-export(add_default_output_tables)
-export(add_table_to_model)
-export(attach_fit_info)
-export(call_nmfe)
-export(call_pharmpy_fit)
-export(call_pharmpy_tool)
-export(call_psn)
-export(clean_modelfit_data)
-export(clean_nonmem_folder)
-export(clean_pharmpy_runfolders)
-export(combine_regimens)
-export(compare_nlme_fit)
-export(create_covariate_search_space)
-export(create_model)
-export(create_model_nlmixr)
-export(create_pkmodel_search_space)
-export(create_regimen)
-export(create_vpc_data)
-export(find_pk_parameter)
-export(fit_model)
-export(get_advan)
-export(get_condition_number_for_fit)
-export(get_final_results_from_search)
-export(get_fit_info)
-export(get_initial_estimates_from_data)
-export(get_obs_compartment)
-export(get_ode_size)
-export(get_pharmpy_conf)
 export(get_table_for_plots)
-export(get_tables_from_fit)
-export(get_tables_in_model_code)
-export(get_tool_from_model)
 export(ifelse0)
-export(is_ltbs_model)
-export(is_maxeval_zero)
 export(luna_check)
 export(luna_clone)
 export(luna_compare)
@@ -61,20 +26,9 @@ export(luna_tables)
 export(luna_tag)
 export(luna_tool)
 export(luna_xpose)
-export(nm_read_model)
-export(nm_save_model)
-export(nm_update_dataset)
-export(read_table_nm)
-export(remove_table_from_model)
-export(remove_tables_from_model)
 export(replace_list_elements)
-export(run_nlme)
-export(run_sim)
-export(save_model_code)
-export(scale_initial_estimates_pk)
-export(set_compartment_scale)
-export(set_covariance)
-export(stack_encounters)
 export(update_cache)
-export(update_parameters)
-export(update_pk_tables)
+importFrom(stats,setNames)
+importFrom(utils,file.edit)
+importFrom(utils,tail)
+importFrom(utils,write.csv)