more internal function rearrangements

jeffkimbrel · Sep 29, 2023 · 2a34c92 · 2a34c92
1 parent 0db5669
commit 2a34c92
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Showing 11 changed files with 7 additions and 110 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,6 +1,6 @@
 Package: qSIP2
 Title: qSIP Analysis
-Version: 0.4.5.9006
+Version: 0.4.5.9007
 Authors@R: 
     person("Jeff", "Kimbrel", , "[email protected]", role = c("aut", "cre"),
            comment = c(ORCID = "YOUR-ORCID-ID"))

diff --git a/NAMESPACE b/NAMESPACE
@@ -1,13 +1,9 @@
 # Generated by roxygen2: do not edit by hand
 
-export(abundance_validation)
 export(add_gradient_pos_rel_amt)
 export(add_isotopolog_label)
 export(add_taxonomy)
 export(get_sample_counts)
-export(gradient_pos_density_validation)
-export(gradient_position_validation)
-export(isotope_validation)
 export(plot_sample_curves)
 export(qsip_feature_data)
 export(qsip_sample_data)

diff --git a/R/abundance_validation.R → R/internal/abundance_validation.R b/R/abundance_validation.R → R/internal/abundance_validation.R
diff --git a/R/gradient_pos_density_validation.R → R/internal/gradient_pos_density_validation.R b/R/gradient_pos_density_validation.R → R/internal/gradient_pos_density_validation.R
@@ -7,7 +7,7 @@
 #' @return Returns `NULL` if the density values are valid, or a printed error
 #'
 #' @export
-#' @keywords validation
+#' @keywords internal
 
 gradient_pos_density_validation = function(gradient_pos_density, low = 1.55, high = 1.8) {
 

diff --git a/R/gradient_position_validation.R → R/internal/gradient_position_validation.R b/R/gradient_position_validation.R → R/internal/gradient_position_validation.R
@@ -10,7 +10,7 @@
 #'
 #' @export
 #'
-#' @keywords validation
+#' @keywords internal
 
 gradient_position_validation = function(gradient_position) {
   if (is.numeric(gradient_position)) {

diff --git a/R/isotope_validation.R → R/internal/isotope_validation.R b/R/isotope_validation.R → R/internal/isotope_validation.R
@@ -5,7 +5,7 @@
 #'
 #' @return Returns `NULL` if the isotope strings are valid, or a printed error
 #'
-#' @keywords validation
+#' @keywords internal
 #'
 #' @export
 #'

diff --git a/_pkgdown.yml b/_pkgdown.yml
@@ -6,16 +6,15 @@ template:
 reference:
 - title: qSIP Objects
   contents:
-  - has_keyword("object")
+  - qsip_source_data
+  - qsip_sample_data
+  - qsip_feature_data
 - title: Sample Data
   contents:
   - has_keyword("sample_data")
 - title: Abundance Data
   contents:
   - has_keyword("abundance")
-- title: Validation functions
-  contents:
-  - has_keyword("validation")
 - title: Data
   contents:
   - has_keyword("data")

diff --git a/man/abundance_validation.Rd b/man/abundance_validation.Rd
diff --git a/man/gradient_pos_density_validation.Rd b/man/gradient_pos_density_validation.Rd
diff --git a/man/gradient_position_validation.Rd b/man/gradient_position_validation.Rd
diff --git a/man/isotope_validation.Rd b/man/isotope_validation.Rd