an error message when using auk_filter

[huckbuc]

Hi,

I am new to auk, but have a lot of experience with R. I am trying to work through the "Best Practices" guide, but got stuck in the "Data extraction with auk" section, as I am getting an error message "Error running AWK command" after running the auk_filter command.

Here are more details:

• Because of disk space issues, I downloaded a much smaller EBD file, of Israel only, so I have on my (windows) computer the two files ebd_IL_relOct-2022.txt and ebd_sampling_relOct-2022.txt in the directory C:/ebird_data.

• I ran seemingly successfully the following code (changed the filter a bit):

library(auk)
library(lubridate)
library(sf)
library(gridExtra)
library(tidyverse)

select <- dplyr::select

dir.create("data", showWarnings = FALSE)

ebd_main_file <- "C:/ebird_data/ebd_IL_relOct-2022.txt"
ebd_main_sampling_file <- "C:/ebird_data/ebd_sampling_relOct-2022.txt"

ebd <- auk_ebd(ebd_main_file, 
               file_sampling = ebd_main_sampling_file)

ebd_filters <- ebd %>% 
  auk_date(date = c("2020-06-01", "2020-06-30")) %>% 
  auk_protocol(protocol = c("Stationary", "Traveling")) %>% 
  auk_complete()
ebd_filters

data_dir <- "data"
if (!dir.exists(data_dir)) {
  dir.create(data_dir)
}

f_ebd <- file.path(data_dir, "ebd_june_2020_IL.txt")
f_sampling <- file.path(data_dir, "ebd_checklists_june_2020_IL.txt")

• But upon running the next command, (when the data directory is empty),

  if (!file.exists(f_ebd)) {
  auk_filter(ebd_filters, file = f_ebd, file_sampling = f_sampling)
  }

  I get the error message

  Error in auk_filter.auk_ebd(ebd_filters, file = f_ebd, file_sampling = f_sampling) : 
  Error running AWK command.

• Cygwin is installed properly on my computer, and awk works well within cygwin.

• auk seems to know the right place of awk:

  > auk_get_awk_path()
  [1] "C:/cygwin64/bin/gawk.exe"

What am I missing? Will greatly appreciate any help!