fixes

Author: Adafede

codemeta.json

@@ -513,7 +513,7 @@
     "SystemRequirements": null
   },
   "keywords": ["metaboliteannotation", "chemotaxonomy", "scoringsystem", "naturalproducts", "computationalmetabolomics", "taxonomicdistance", "specializedmetabolome"],
-  "fileSize": "2815.809KB",
+  "fileSize": "2818.504KB",
   "citation": [
     {
       "@type": "ScholarlyArticle",

tests/testthat/test_functions.R

@@ -32,6 +32,10 @@ testthat::test_that("Test functions", {
 
   ## Get all files
   ### Features table
+  get_file(
+    url = paths$urls$examples$features,
+    export = paths$data$source$features
+  )
   get_gnps_tables(
     filename = "example",
     path_features = paths$data$source$features,
@@ -40,6 +44,10 @@ testthat::test_that("Test functions", {
     gnps_job_id = params$gnps$id
   )
   ### Metadata table
+  get_file(
+    url = paths$urls$examples$metadata,
+    export = paths$data$source$metadata
+  )
   get_file(
     url = paths$urls$examples$metadata |>
       gsub(pattern = ".tsv", replacement = "_unrecognized.tsv"),

vignettes/I-inputs.Rmd

@@ -127,7 +127,7 @@ The most important file you need to provide is an MGF file containing the spectr
 source(file = "inst/scripts/get_gnps_tables.R")
 ```
 
-To get some example files (corresponding to the spectra to annotate, corresponding areas and metadta), just run:
+To get some example files (corresponding to the spectra to annotate, corresponding areas and metadata), just run:
 
 ```{r unlink-spectra, include = FALSE}
 unlink("data/source/example_spectra.mgf")