update url

Author: slager

README.Rmd

@@ -83,7 +83,7 @@ You have diverse raw data sets that you need to preprocess and tidy in order to:
 
 - **Package size limits.**
 
-  R packages have a 10MB size limit, at least on [CRAN](https://cran.r-project.org/web/packages/policies.html). Bioconductor [ExperimentHub](http://contributions.bioconductor.org/data.html#data) may be able to support larger data packages.
+  R packages have a 10MB size limit, at least on [CRAN](https://cran.r-project.org/web/packages/policies.html). Bioconductor [ExperimentHub](https://contributions.bioconductor.org/data.html#data) may be able to support larger data packages.
 
   Sharing large volumes of raw data in an R package format is still not ideal, and there are public biological data repositories better suited for raw data: e.g.,  [GEO](https://www.ncbi.nlm.nih.gov/geo/), [SRA](https://www.ncbi.nlm.nih.gov/sra), [ImmPort](https://www.immport.org/), [ImmuneSpace](https://immunespace.org/), [FlowRepository](http://flowrepository.org/).
 

README.md

@@ -91,7 +91,7 @@ purpose is to contain, access, and / or document data sets.
   R packages have a 10MB size limit, at least on
   [CRAN](https://cran.r-project.org/web/packages/policies.html).
   Bioconductor
-  [ExperimentHub](http://contributions.bioconductor.org/data.html#data)
+  [ExperimentHub](https://contributions.bioconductor.org/data.html#data)
   may be able to support larger data packages.
 
   Sharing large volumes of raw data in an R package format is still not
@@ -180,28 +180,28 @@ datapackage_skeleton(
   code_files = processing_code,
   r_object_names = "cars_over_20",
   path = tempdir())
-#> ✔ Creating '/tmp/RtmpU0javb/mtcars20/'
-#> ✔ Setting active project to '/tmp/RtmpU0javb/mtcars20'
-#> ✔ Creating 'R/'
-#> ✔ Writing 'DESCRIPTION'
+#> ✔ Creating '/tmp/RtmpT70eUS/mtcars20/'.
+#> ✔ Setting active project to "/tmp/RtmpT70eUS/mtcars20".
+#> ✔ Creating 'R/'.
+#> ✔ Writing 'DESCRIPTION'.
 #> Package: mtcars20
 #> Title: What the Package Does (One Line, Title Case)
 #> Version: 0.0.0.9000
 #> Authors@R (parsed):
-#>     * First Last <first.last@example.com> [aut, cre] (YOUR-ORCID-ID)
+#>     * First Last <first.last@example.com> [aut, cre]
 #> Description: What the package does (one paragraph).
 #> License: `use_mit_license()`, `use_gpl3_license()` or friends to pick a
 #>     license
 #> Encoding: UTF-8
 #> Roxygen: list(markdown = TRUE)
-#> RoxygenNote: 7.3.1
-#> ✔ Writing 'NAMESPACE'
-#> ✔ Setting active project to '<no active project>'
-#> ✔ Setting active project to '/tmp/RtmpU0javb/mtcars20'
+#> RoxygenNote: 7.3.3
+#> ✔ Writing 'NAMESPACE'.
+#> ✔ Setting active project to "<no active project>".
+#> ✔ Setting active project to "/tmp/RtmpT70eUS/mtcars20".
 #> ✔ Added DataVersion string to 'DESCRIPTION'
-#> ✔ Creating 'data-raw/'
-#> ✔ Creating 'data/'
-#> ✔ Creating 'inst/extdata/'
+#> ✔ Creating 'data-raw/'.
+#> ✔ Creating 'data/'.
+#> ✔ Creating 'inst/extdata/'.
 #> ✔ Copied subsetCars.Rmd into 'data-raw'
 #> ✔ configured 'datapackager.yml' file
 
@@ -219,14 +219,14 @@ package_build(packageName = file.path(tempdir(),"mtcars20"))
 #> ☘ Built all datasets!
 #> Non-interactive NEWS.md file update.
 #> * Added: cars_over_20
-#> ✔ Creating 'vignettes/'
-#> ✔ Creating 'inst/doc/'
+#> ✔ Creating 'vignettes/'.
+#> ✔ Creating 'inst/doc/'.
 #> ℹ Loading mtcars20
 #> Writing 'NAMESPACE'
 #> Writing 'mtcars20.Rd'
 #> Writing 'cars_over_20.Rd'
 #> ── R CMD build ─────────────────────────────────────────────────────────────────
-#> * checking for file ‘/tmp/RtmpU0javb/mtcars20/DESCRIPTION’ ... OK
+#> * checking for file ‘/tmp/RtmpT70eUS/mtcars20/DESCRIPTION’ ... OK
 #> * preparing ‘mtcars20’:
 #> * checking DESCRIPTION meta-information ... OK
 #> * checking for LF line-endings in source and make files and shell scripts
@@ -235,17 +235,17 @@ package_build(packageName = file.path(tempdir(),"mtcars20"))
 #> * building ‘mtcars20_1.0.tar.gz’
 #> 
 #> Next Steps 
-#> 1. Update your package documentation. 
-#>    - Edit the documentation.R file in the package source data-raw subdirectory and update the roxygen markup. 
-#>    - Rebuild the package documentation with  document() . 
-#> 2. Add your package to source control. 
-#>    - Call  git init .  in the package source root directory. 
-#>    -  git add  the package files. 
-#>    -  git commit  your new package. 
+#> 1. Update your package documentation.
+#>    - Edit the documentation.R file in the package sourcedata-rawsubdirectory and update the roxygen markup. 
+#>    - Rebuild the package documentation with document(). 
+#> 2. Add your package to source control.
+#>    - Call git init . in the package source root directory. 
+#>    - git add the package files. 
+#>    - git commit your new package. 
 #>    - Set up a github repository for your pacakge. 
 #>    - Add the github repository as a remote of your local package repository. 
-#>    -  git push  your local repository to gitub.
-#> [1] "/tmp/RtmpU0javb/mtcars20_1.0.tar.gz"
+#>    - git push your local repository to gitub.
+#> [1] "/tmp/RtmpT70eUS/mtcars20_1.0.tar.gz"
 
 # Update the autogenerated roxygen documentation in data-raw/documentation.R.
 # edit(file.path(tempdir(),"mtcars20","R","mtcars20.R"))