Merge pull request #94 from Spatiotemporal-Exposures-and-Toxicology/c…

…leaning_pipeline

try to fix checks

NAMESPACE

@@ -40,5 +40,4 @@ import(data.table)
 import(ggplot2)
 import(spatialsample)
 import(tidyr)
-importFrom(data.table,"%>%")
 importFrom(magrittr,"%>%")

R/process_monitors.R

@@ -3,7 +3,7 @@
 #' @param filename character path to noaa observations file
 #' @returns a list with two datatable, one for the whole observations and
 #' the other with the location metadata only
-#' @importFrom data.table "%>%"
+#' @importFrom magrittr "%>%"
 #' @export
 format_noaa_aws <- function(filename) {
   na_flag <- NULL

R/process_spatial_covariates.R

@@ -3,6 +3,7 @@
 #' @param in_filepath A character path to data file with high resolution
 #' @param out_filepath A character path to the folder where the aggregate file
 #' will be stored
+#' @importFrom magrittr "%>%"
 agg_rast <- function(in_filepath, out_filepath, agg_fact = 30) {
   raw <- terra::rast(in_filepath)
   agg <- terra::aggregate(raw, fact = agg_fact, fun = "median") %>%

vignettes/noaa_obs_processing_comparison_to_era5.Rmd

@@ -3,17 +3,8 @@ title: "NOAA observations processing and comparison to ERA5"
 date: "2023-12-15"
 author: "Eva Marques"
 output: rmarkdown::html_vignette
-vignette: >
-  %\VignetteIndexEntry{NOAA observations processing and comparison to ERA5}
-  %\VignetteEngine{knitr::rmarkdown}
-  %\VignetteEncoding{UTF-8}
-  
 ---
-```{r}
-library(knitr)
-# to base64 encode images
-opts_knit$set(upload.fun = image_uri)
-```
+
 
 ```{r}
 input_path <- "../input/"