我在 Opencpu 服务器上运行的 package 出错

Question

I have a package 'soilreports' built in RStudio, and following the sound advice on https://r-pkgs.org/ . The package produces the appropriate reports as pdfs in the expected folder. It uses the.Rmd file and applies the params.

When I install it in the /usr/local/lib/R/site-library (and restart apache2) to make it accessible by the opencpu server, it is available via the test page on my server, but it fails to run properly when I supply the params by POST.

The test page returns the error message "cannot open the connection In call: file(file, ifelse(append, "a", "w"))" .

I interpreted the error as saying that the function cannot write to the working directory. To that directory added a group which contains the right user as I understand it and gave it write permission.

This has not solved it. In the test page when calling "../library/soilreports/R/pointreportgen" with the appropriate params and values, it still produces the error.

Despite much good advice, I am still missing something. I would greatly appreciate advice to interpret the error message and resolve the problem.

thanks David

Answer 1

Try copying the file to your current working directory and then invoking it.

pointreportgen <- function(sample_point_id,survey_id, farm_id){
  rmdfile <- system.file("rmd", "point_soil_sample_report_params.Rmd", package = "soilreports")
  file.copy(rmdfile, "input.rmd")
  rmarkdown::render(input = "input.rmd", output_file = 'Point_Soil_Sample_Report.pdf', params = list(
    sample_point_id = sample_point_id, 
    survey_id = survey_id, 
    farm_id = farm_id
  )) 
}