Fix build (#10)

.Rbuildignore

@@ -1,2 +1,5 @@
 ^.*\.Rproj$
 ^\.Rproj\.user$
+^_pkgdown\.yml$
+^docs$
+^pkgdown$

.gitignore

@@ -48,3 +48,4 @@ po/*~
 
 # RStudio Connect folder
 rsconnect/
+docs

R/HoloFoodR.R

@@ -8,7 +8,7 @@
 #' details on the JSONAPI implementation.
 #'
 #' @name HoloFoodR-package
-#' @docType _PACKAGE
+#' @docType package
 #' @seealso
 #' \link[SummarizedExperiment:SummarizedExperiment-class]{SummarizedExperiment}
 #' \link[MultiAssayExperiment:MultiAssayExperiment-class]{MultiAssaySummarizedExperiment}

R/doQuery.R

@@ -19,26 +19,26 @@
 #'
 #' @param ... optional arguments:
 #' \itemize{
-#'
-#'   \item{\code{max.hits}: }{\code{NULL} or \code{integer scalar} specifying the
+#' 
+#'   \item \code{max.hits}: \code{NULL} or \code{integer scalar} specifying the
 #'   maximum number of results to fetch. When NULL, all results are fetched.
-#'   (Default: \code{NULL})}
-#'
-#'   \item{\code{spread.sample.types}: }{\code{Logical scalar} specifying whether
+#'   (Default: \code{NULL})
+#'   
+#'   \item \code{spread.sample.types}: \code{Logical scalar} specifying whether
 #'   to create spread sample types column of animals data. In animals data,
 #'   sample types column might have multiple values that might be hard to
 #'   explore. This argument specifies whether to create presence/absence table
-#'   from sample types. (Default: \code{TRUE})}
-#'
-#'   \item{\code{use.cache}: }{\code{Logical scalar} specifying whether to
-#'   use.cache (Default: \code{FALSE})}
-#'
-#'   \item{\code{cache.dir}: }{\code{Character scalar} specifying cache directory.
-#'   (Default: \code{tempdir()})}
-#'
-#'   \item{\code{clear.cache}: }{\code{Logical scalar} specifying whether to
-#'   use.cache (Default: \code{FALSE})}
-#'
+#'   from sample types. (Default: \code{TRUE})
+#'   
+#'   \item \code{use.cache}: \code{Logical scalar} specifying whether to
+#'   use.cache (Default: \code{FALSE})
+#'   
+#'   \item \code{cache.dir}: \code{Character scalar} specifying cache directory.
+#'   (Default: \code{tempdir()})
+#'   
+#'   \item \code{clear.cache}: \code{Logical scalar} specifying whether to
+#'   use.cache (Default: \code{FALSE})
+#'   
 #' }
 #'
 #' @return \code{data.frame}

R/getData.R

@@ -33,20 +33,20 @@
 #'
 #' @param ... optional arguments:
 #' \itemize{
-#'
-#'   \item{\code{max.hits}: }{\code{NULL} or \code{integer scalar} specifying the
+#' 
+#'   \item \code{max.hits}: \code{NULL} or \code{integer scalar} specifying the
 #'   maximum number of results to fetch. When NULL, all results are fetched.
-#'   (Default: \code{NULL})}
-#'
-#'   \item{\code{use.cache}: }{\code{Logical scalar} specifying whether to
-#'   use.cache (Default: \code{FALSE})}
-#'
-#'   \item{\code{cache.dir}: }{\code{Character scalar} specifying cache directory.
-#'   (Default: \code{tempdir()})}
-#'
-#'   \item{\code{clear.cache}: }{\code{Logical scalar} specifying whether to
-#'   use.cache (Default: \code{FALSE})}
-#'
+#'   (Default: \code{NULL})
+#'   
+#'   \item \code{use.cache}: \code{Logical scalar} specifying whether to
+#'   use.cache (Default: \code{FALSE})
+#'   
+#'   \item \code{cache.dir}: \code{Character scalar} specifying cache directory.
+#'   (Default: \code{tempdir()})
+#'   
+#'   \item \code{clear.cache}: \code{Logical scalar} specifying whether to
+#'   use.cache (Default: \code{FALSE})
+#'   
 #' }
 #'
 #' @return \code{list} or \code{data.frame}

R/getResult.R

@@ -21,16 +21,16 @@
 #'
 #' @param ... optional arguments:
 #' \itemize{
-#'
-#'   \item{\code{use.cache}: }{\code{Logical scalar} specifying whether to
-#'   use.cache (Default: \code{FALSE})}
-#'
-#'   \item{\code{cache.dir}: }{\code{Character scalar} specifying cache directory.
-#'   (Default: \code{tempdir()})}
-#'
-#'   \item{\code{clear.cache}: }{\code{Logical scalar} specifying whether to
-#'   use.cache (Default: \code{FALSE})}
-#'
+#'   
+#'   \item \code{use.cache}: \code{Logical scalar} specifying whether to
+#'   use.cache (Default: \code{FALSE})
+#'   
+#'   \item \code{cache.dir}: \code{Character scalar} specifying cache directory.
+#'   (Default: \code{tempdir()})
+#'   
+#'   \item \code{clear.cache}: \code{Logical scalar} specifying whether to
+#'   use.cache (Default: \code{FALSE})
+#'   
 #' }
 #'
 #' @return \code{MultiAssayExperiment}

_pkgdown.yml

@@ -0,0 +1,4 @@
+url: ~
+template:
+  bootstrap: 5
+