Merge pull request #32 from nutriverse/v0.1.1

resolve check errors
nutriverse · Nov 26, 2020 · 409bfac · 409bfac
2 parents 465d28b + c76937b
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diff --git a/.Rbuildignore b/.Rbuildignore
@@ -21,3 +21,4 @@
 ^vignettes/as\.Rmd$
 ^\.github$
 ^pkgdown$
+^cran-comments\.md$
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,6 +1,6 @@
 Package: nipnTK
 Type: Package
-Title: NiPN Anthropometric Data Toolkit
+Title: National Information Platforms for Nutrition Anthropometric Data Toolkit
 Version: 0.1.0
 Authors@R: c(
     person(given = "Mark", 
@@ -13,11 +13,12 @@ Authors@R: c(
            comment = c(ORCID = "0000-0002-4887-4415"), 
            email = "ernest@guevarra.io", 
            role = c("aut", "cre")))
-Description: An implementation of the National Information Platforms for Nutrition 
-    (NiPN) analytical methods for assessing quality of anthropometric datasets that 
-    include measurements of weight, height or length, MUAC, sex and age. The 
-    focus is on anthropometric status but many of the presented methods could be 
-    applied to other variables.
+Description: An implementation of the National Information Platforms for 
+    Nutrition or NiPN's analytic methods for assessing quality of anthropometric 
+    datasets that include measurements of weight, height or length, middle upper 
+    arm circumference, sex and age. The focus is on anthropometric status but 
+    many of the presented methods could be applied to other variables.
+License: GPL-3
 Depends: R (>= 2.10)
 Imports: 
     stats,
@@ -29,7 +30,6 @@ Suggests:
     rmarkdown,
     tufte,
     spelling
-License: GPL-3
 Encoding: UTF-8
 Language: en-GB
 LazyData: true

diff --git a/NEWS.md b/NEWS.md
@@ -1,6 +1,6 @@
 # nipnTK 0.1.0
 
-* Added a `NEWS.md` file to track changes to the package.
+This is the first [CRAN](https://cran.r-project.org) release of `nipnTK`.
 
 
 
diff --git a/R/data.R b/R/data.R
@@ -22,7 +22,7 @@
 #' | *muac* | Mid-upper arm circumference (cm) |
 #' | *oedema* | Oedema |
 #'
-#' @source Data courtesy of [HelpAge International](http://www.helpage.org)
+#' @source Data courtesy of [HelpAge International](https://www.helpage.org)
 #'
 #
 ################################################################################
@@ -54,7 +54,7 @@
 #'
 #' Example dataset for age and sex distributions function
 #'
-#' Census data of Tanzania taken from the Wolfram|Alpha knoweldge engine.
+#' Census data of Tanzania taken from the Wolfram|Alpha knowledge engine.
 #'
 #' @format A data frame with 20 observations and 4 variables
 #'

diff --git a/R/digitPreference.R b/R/digitPreference.R
@@ -15,7 +15,7 @@
 #' \cite{Kari Kuulasmaa K, Hense HW, Tolonen H (for the WHO MONICA Project),
 #' Quality Assessment of Data on Blood Pressure in the WHO MONICA Project,
 #' WHO MONICA Project e-publications No. 9, WHO, Geneva, May 1998 available
-#' from \url{http://www.thl.fi/publications/monica/bp/bpqa.htm}}
+#' from \url{https://www.thl.fi/publications/monica/bp/bpqa.htm}}
 #'
 #' @param x Numeric vector
 #' @param digits Number of decimal places in `x`. using `digits = 1`

diff --git a/R/outliersMD.R b/R/outliersMD.R
@@ -8,7 +8,7 @@
 #'     0.001)
 #' @return A logical vector (TRUE for an outlier at `p < alpha`)
 #' @examples
-#' # Use \code{outliersMD()} to detect outliers in an anthropometric data from
+#' # Use outliersMD() to detect outliers in an anthropometric data from
 #' # a SMART survey from the Democratic Republic of Congo (sp.ex01)
 #' svy <- sp.ex01
 #' svy[outliersMD(svy$height,svy$weight), ]

diff --git a/README.Rmd b/README.Rmd
@@ -29,7 +29,6 @@ library(nipnTK)
 [![AppVeyor Build Status](https://ci.appveyor.com/api/projects/status/github/nutriverse/nipnTK?branch=master&svg=true)](https://ci.appveyor.com/project/nutriverse/nipnTK)
 [![R build status](https://github.com/nutriverse/nipnTK/workflows/test-coverage/badge.svg)](https://github.com/nutriverse/nipnTK/actions)
 [![codecov](https://codecov.io/gh/nutriverse/nipnTK/branch/master/graph/badge.svg)](https://codecov.io/gh/nutriverse/nipnTK)
-[![CodeFactor](https://www.codefactor.io/repository/github/nutriverse/nipntk/badge)](https://www.codefactor.io/repository/github/nutriverse/nipntk)
 <!-- Badges end here -->
 
 [National Information Platforms for Nutrition (NiPN)](http://www.nipn-nutrition-platforms.org) is an initiative of the European Commission to provide support to countries to strengthen their information systems for nutrition and to improve the analysis of data so as to better inform the strategic decisions they are faced with to prevent malnutrition and its consequences.
@@ -87,6 +86,6 @@ knitr::include_graphics("man/figures/nipnWorkflow.png")
 
 ## Community guidelines
 
-Feedback, bug reports and feature requests are welcome; file issues or seek support [here](https://github.com/nutriverse/nipnTK/issues). If you would like to contribute to the package, please see our [contributing guidelines](https://nutriverse.io/nipnTK/docs/CONTRIBUTING.html).
+Feedback, bug reports and feature requests are welcome; file issues or seek support [here](https://github.com/nutriverse/nipnTK/issues). If you would like to contribute to the package, please see our [contributing guidelines](https://nutriverse.io/nipnTK/CONTRIBUTING.html).
 
-This project is released with a [Contributor Code of Conduct](https://nutriverse.io/nipnTK/docs/CODE_OF_CONDUCT.html). By participating in this project you agree to abide by its terms.
+This project is released with a [Contributor Code of Conduct](https://nutriverse.io/nipnTK/CODE_OF_CONDUCT.html). By participating in this project you agree to abide by its terms.
diff --git a/README.md b/README.md
@@ -19,7 +19,6 @@ Status](https://ci.appveyor.com/api/projects/status/github/nutriverse/nipnTK?bra
 [![R build
 status](https://github.com/nutriverse/nipnTK/workflows/test-coverage/badge.svg)](https://github.com/nutriverse/nipnTK/actions)
 [![codecov](https://codecov.io/gh/nutriverse/nipnTK/branch/master/graph/badge.svg)](https://codecov.io/gh/nutriverse/nipnTK)
-[![CodeFactor](https://www.codefactor.io/repository/github/nutriverse/nipntk/badge)](https://www.codefactor.io/repository/github/nutriverse/nipntk)
 <!-- Badges end here -->
 
 [National Information Platforms for Nutrition
@@ -114,8 +113,8 @@ are shown below:
 Feedback, bug reports and feature requests are welcome; file issues or
 seek support [here](https://github.com/nutriverse/nipnTK/issues). If you
 would like to contribute to the package, please see our [contributing
-guidelines](https://nutriverse.io/nipnTK/docs/CONTRIBUTING.html).
+guidelines](https://nutriverse.io/nipnTK/CONTRIBUTING.html).
 
 This project is released with a [Contributor Code of
-Conduct](https://nutriverse.io/nipnTK/docs/CODE_OF_CONDUCT.html). By
+Conduct](https://nutriverse.io/nipnTK/CODE_OF_CONDUCT.html). By
 participating in this project you agree to abide by its terms.
diff --git a/cran-comments.md b/cran-comments.md
@@ -0,0 +1,21 @@
+## Test environments
+* local R installation, R 4.0.3
+* ubuntu 20.04 (on GitHub Actions), R 4.0.3
+* ubuntu 20.04 (on GitHub Actions), R devel
+* windows latest (on GitHub Actions), R 4.0.3
+* macOS latest (on GitHub Actions), R 4.0.3
+* win-builder (devel, release, old-release)
+* rhub (windows-devel, fedora-devel, ubuntu-release)
+
+## R CMD check results
+
+0 errors | 0 warnings | 1 note
+
+* This is a new release.
+
+* Possibly mis-spelled words in DESCRIPTION:
+  Anthropometric (3:13)
+  NiPN (3:8)
+  anthropometric (17:59, 19:49)
+
+  - These are not mis-spelled.
diff --git a/docs/apple-touch-icon-120x120.png b/docs/apple-touch-icon-120x120.png
diff --git a/docs/apple-touch-icon-152x152.png b/docs/apple-touch-icon-152x152.png
diff --git a/docs/apple-touch-icon-180x180.png b/docs/apple-touch-icon-180x180.png
diff --git a/docs/apple-touch-icon-60x60.png b/docs/apple-touch-icon-60x60.png
diff --git a/docs/apple-touch-icon-76x76.png b/docs/apple-touch-icon-76x76.png
diff --git a/docs/apple-touch-icon.png b/docs/apple-touch-icon.png
diff --git a/docs/articles/flagging.html b/docs/articles/flagging.html
diff --git a/docs/articles/rl.html b/docs/articles/rl.html
diff --git a/docs/favicon-16x16.png b/docs/favicon-16x16.png
diff --git a/docs/favicon-32x32.png b/docs/favicon-32x32.png
diff --git a/docs/favicon.ico b/docs/favicon.ico
diff --git a/docs/index.html b/docs/index.html
diff --git a/docs/logo.png b/docs/logo.png
diff --git a/docs/news/index.html b/docs/news/index.html
diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml
@@ -11,7 +11,7 @@ articles:
   rl: rl.html
   sp: sp.html
   sr: sr.html
-last_built: 2020-11-26T02:29Z
+last_built: 2020-11-26T09:12Z
 urls:
   reference: https://nutriverse.io/nipnTK/reference
   article: https://nutriverse.io/nipnTK/articles

diff --git a/docs/reference/ah.ex01.html b/docs/reference/ah.ex01.html
diff --git a/docs/reference/as.ex02.html b/docs/reference/as.ex02.html
diff --git a/docs/reference/digitPreference.html b/docs/reference/digitPreference.html
diff --git a/docs/reference/figures/logo.png b/docs/reference/figures/logo.png
diff --git a/docs/reference/outliersMD.html b/docs/reference/outliersMD.html
diff --git a/inst/WORDLIST b/inst/WORDLIST
@@ -3,7 +3,6 @@ AnthroPlus
 AppVeyor
 BAZ
 BMI
-CodeFactor
 DHS
 DPS
 Dadaab
@@ -21,8 +20,8 @@ LCL
 MADs
 MUAC
 NCHS
-NIPN
 NiPN
+NiPN's
 ORCID
 PSU
 PSUs
@@ -34,7 +33,6 @@ Tolonen
 WAZ
 WHZ
 Wilk
-XQuarts
 XQuartz
 adults’
 ageChildren
@@ -61,7 +59,6 @@ haz
 ht
 htm
 kgs
-knoweldge
 kwashiorkor
 lifecycle
 mads
@@ -74,7 +71,6 @@ observedR
 org
 pM
 pct
-previou
 psu
 sd
 se
@@ -91,3 +87,7 @@ xquartz
 years’
 zt
 β
+Anthropometric
+anthropometric
+anthropometry
+
diff --git a/man/ah.ex01.Rd b/man/ah.ex01.Rd
diff --git a/man/as.ex02.Rd b/man/as.ex02.Rd
diff --git a/man/digitPreference.Rd b/man/digitPreference.Rd
diff --git a/man/figures/logo.png b/man/figures/logo.png
diff --git a/man/outliersMD.Rd b/man/outliersMD.Rd
diff --git a/pkgdown/favicon/apple-touch-icon-120x120.png b/pkgdown/favicon/apple-touch-icon-120x120.png
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