tweak package size

saudiwin · Feb 12, 2023 · 53887a1 · 53887a1
1 parent 274dff2
commit 53887a1
Show file tree

Hide file tree

Showing 7 changed files with 13 additions and 28 deletions.
diff --git a/CRAN-SUBMISSION b/CRAN-SUBMISSION
@@ -1,3 +1,3 @@
-Version: 0.5.0
-Date: 2022-10-25 04:47:42 UTC
-SHA: 591c34a50aa7e30693c33dadcaf964c3094d105b
+Version: 0.7.0
+Date: 2023-02-10 13:01:25 UTC
+SHA: 274dff201302c0f068d8559215c6b076ab36120f
diff --git a/cran-comments.md b/cran-comments.md
@@ -3,31 +3,14 @@
 0 errors | 0 warnings | 1 notes
 
 ❯ checking installed package size ... NOTE
-    installed size is 13.4Mb
+    installed size is  9.5Mb
     sub-directories of 1Mb or more:
-      data  10.0Mb
-      doc    3.3Mb
+      data   6.1Mb
+      doc    3.2Mb
 
 The data sub-directory contains fitted models that are used to illustrate function examples because fitting the model can take up to an hour. 
 
-Submitting to win-release results in 1 ERROR: 
-
-Error(s) in re-building vignettes:
---- re-building 'package_introduction.Rmd' using rmarkdown
-Quitting from lines 247-258 (package_introduction.Rmd) 
-Error: processing vignette 'package_introduction.Rmd' failed with diagnostics:
-could not find function "avg_slopes"
---- failed re-building 'package_introduction.Rmd'
-
-SUMMARY: processing the following file failed:
-  'package_introduction.Rmd'
-
-Error: Vignette re-building failed.
-Execution halted
-
 Submitting to win-devel results in OK status - no NOTEs or WARNINGs.
 
-The error in win-release appears to be due to the fact the marginaleffects package, which has the avg_slopes function, does not have a binary available for windows for the current version of the package, 0.9.0. This is the required version listed under the Suggests field in ordbetareg but win-release is installing an older version that does not have the avg_slopes function. However, it is necessary to update to 0.9.0 as otherwise the package vignette fails to compile, and I received an email from the CRAN maintainer requesting that I update the package to handle marginaleffects 0.9.0--see build logs at https://cran.r-project.org/web/checks/check_results_ordbetareg.html. If I do not update the package by 2-16-2023, it will be removed from CRAN.
-
-As such, it would seem that this error in win-release should be ignored as it is not clear why it is not installing the current version of marginaleffects, which has been available since Feb 1 2023.
+Submitting to win-release results in OK status - no NOTEs or WARNINGs.
 
diff --git a/data/fit_imputed.rda b/data/fit_imputed.rda
diff --git a/data/fit_multivariate.rda b/data/fit_multivariate.rda
diff --git a/data/ord_fit_mean.rda b/data/ord_fit_mean.rda
diff --git a/data/ord_fit_phi.rda b/data/ord_fit_phi.rda
diff --git a/vignettes/package_introduction.Rmd b/vignettes/package_introduction.Rmd
@@ -134,7 +134,7 @@ if(run_model) {
                                (1|region), 
                        data=model_data,
                        control=list(adapt_delta=0.95),
-                cores=2,chains=2,iter=1000,
+                cores=2,chains=2,iter=500,
                 refresh=0)
                 # NOTE: to do parallel processing within chains
                 # add the options below
@@ -339,7 +339,8 @@ if(run_model) {
   
   fit_imputed <- ordbetareg(formula = outcome ~ X,
                             data=mult_impute,
-                            use_brm_multiple = T)
+                            use_brm_multiple = T,
+                                 cores=1,chains=1, iter=500)
   
 } else {
   
@@ -386,7 +387,8 @@ if(run_model) {
   
   fit_multivariate <- ordbetareg(formula=mod1 + mod2 + set_rescor(FALSE),
                                  data=tibble(outcome=outcome,
-                                             X=X,Z=Z))
+                                             X=X,Z=Z),
+                                 cores=1,chains=1, iter=500)
   
 }
   
@@ -425,7 +427,7 @@ if(run_model) {
                 phi ~ age + sex),
                 phi_reg = T,
                 data=model_data,
-                cores=2,chains=2,iter=1000,
+                cores=2,chains=2,iter=500,
                 refresh=0)
                 # NOTE: to do parallel processing within chains
                 # add the options below