* using log directory 'd:/Rcompile/CRANpkg/local/4.1/simplermarkdown.Rcheck'
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* checking for file 'simplermarkdown/DESCRIPTION' ... OK
* this is package 'simplermarkdown' version '0.0.6'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'simplermarkdown' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [4s] OK
* checking Rd files ... [1s] OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... NONE
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [3s] ERROR
  Running 'test_file_subs_ext.R' [0s]
  Running 'test_mdtangle.R' [0s]
  Running 'test_mdweave.R' [1s]
  Running 'test_run_and_capture.R' [0s]
Running the tests in 'tests/test_mdweave.R' failed.
Complete output:
  > # mdweave a couple of documents and check if the output is the
  > # same as the corresponding reference documents
  > 
  > library(simplermarkdown)
  > 
  > if (simplermarkdown:::has_pandoc()) {
  + 
  +   # We only want to check if the output of mdweave matches the reference if the
  +   # pandoc version matches that which generated the reference. Otherwise there
  +   # is a large chance that the output does not match
  +   pandoc_version <- system("pandoc --version", intern = TRUE)
  +   #correct_pandoc_version <- c("pandoc 2.5",
  +   #  "Compiled with pandoc-types 1.17.5.4, texmath 0.11.2.2, skylighting 0.7.7")
  +   correct_pandoc_version <- "pandoc 2.17.1.1"
  +   is_correct_pandoc_version <- all(pandoc_version[1] == correct_pandoc_version)
  + 
  + 
  +   # Create tempdir
  +   dir <- tempdir()
  +   dir.create(dir, recursive = TRUE, showWarnings = FALSE)
  +   oldwd <- setwd(dir)
  + 
  +   # When running tests the environment variable R_TESTS is set. This
  +   # causes issues when running a second R instance as mdweave does. Therefore
  +   # we unser it.
  +   old_env <- Sys.getenv("R_TESTS")
  +   Sys.setenv("R_TESTS" = "")
  + 
  +   # =============================================================================
  +   message("Checking iris.md")
  +   md <- "iris.md"
  + 
  +   message("Weave file")
  +   fn <- system.file(file.path("examples", md), package = "simplermarkdown")
  +   mdweave(fn)
  + 
  +   message("Check if result generated")
  +   stopifnot(file.exists(md))
  + 
  +   if (is_correct_pandoc_version) {
  +     message("Compare to reference")
  +     lines <- readLines(md)
  +     fn_ref <- system.file(file.path("examples_output", md), 
  +       package = "simplermarkdown")
  +     lines_ref <- readLines(fn_ref)
  +     print(all.equal(lines, lines_ref))
  +     system(paste0("diff ", md, " ", fn_ref))
  +     writeLines(lines)
  +     stopifnot(isTRUE(all.equal(lines, lines_ref)))
  +   }
  + 
  +   message("Check images")
  +   # We don't check if the images are exactly the same; this probably 
  +   # depends on the exact output device used; versions etc.
  +   stopifnot(file.exists("figures/iris.png"))
  + 
  +   message("Cleanup")
  +   #unlink(md)
  +   unlink("figures")
  + 
  +   # =============================================================================
  +   message("Checking iris.md with format_copypaste")
  +   md <- "iris_copypaste.md"
  + 
  +   message("Weave file")
  +   fn <- system.file(file.path("examples", md), package = "simplermarkdown")
  +   mdweave(fn)
  + 
  +   message("Check if result generated")
  +   stopifnot(file.exists(md))
  + 
  +   if (is_correct_pandoc_version) {
  +     message("Compare to reference")
  +     lines <- readLines(md)
  +     fn_ref <- system.file(file.path("examples_output", md), 
  +       package = "simplermarkdown")
  +     lines_ref <- readLines(fn_ref)
  +     print(all.equal(lines, lines_ref))
  +     system(paste0("diff ", md, " ", fn_ref))
  +     writeLines(lines)
  +     stopifnot(isTRUE(all.equal(lines, lines_ref)))
  +   }
  + 
  +   message("Check images")
  +   # We don't check if the images are exactly the same; this probably 
  +   # depends on the exact output device used; versions etc.
  +   stopifnot(file.exists("figures/iris.png"))
  + 
  +   message("Cleanup")
  +   #unlink(md)
  +   unlink("figures")
  + 
  +   # =============================================================================
  +   message("Checking example1.md")
  +   md <- "example1.md"
  + 
  +   message("Weave file")
  +   fn <- system.file(file.path("examples", md), package = "simplermarkdown")
  +   mdweave(fn)
  + 
  +   message("Check if result generated")
  +   stopifnot(file.exists(md))
  + 
  +   if (is_correct_pandoc_version) {
  +     message("Compare to reference")
  +     lines <- readLines(md)
  +     fn_ref <- system.file(file.path("examples_output", md), 
  +       package = "simplermarkdown")
  +     lines_ref <- readLines(fn_ref)
  +     print(all.equal(lines, lines_ref))
  +     system(paste0("diff ", md, " ", fn_ref))
  +     stopifnot(isTRUE(all.equal(lines, lines_ref)))
  +   }
  + 
  +   message("Check images")
  +   # We don't check if the images are exactly the same; this probably 
  +   # depends on the exact output device used; versions etc.
  +   stopifnot(file.exists("figures/foo.png"))
  +   stopifnot(file.exists("figures/test.pdf"))
  + 
  +   message("Cleanup")
  +   unlink(md)
  +   unlink("figures")
  + 
  + 
  +   # =============================================================================
  +   # An markdown file without a header block gave an error with version 0.0.3. 
  +   # Regression test
  +   fn <- tempfile(fileext=".md")
  +   writeLines("# Introduction", fn)
  +   fn2 <- tempfile(fileext=".md")
  +   mdweave(fn, fn2)
  +   unlink(fn)
  +   unlink(fn2)
  + 
  +   
  +   # =============================================================================
  +   # END
  +   Sys.setenv("R_TESTS" = old_env)
  +   setwd(oldwd)
  + }
  Checking iris.md
  Weave file
  Evaluating code in block 'table'.
  Evaluating code in block 'figure'.
  Evaluating code in block '<unlabeled code block>'.
  Evaluating code in inline block '<unlabeled inline block>'.
  Evaluating code in inline block '<unlabeled inline block>'.
  Error in run_cmd(cmd2, paste0("Failed to convert the processed JSON file back to ",  : 
    Running '' had status 127; this generally means that '' could not be found. Make sure '' in on the path.
  Calls: mdweave -> run_cmd
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking re-building of vignette outputs ... [1s] WARNING
Error(s) in re-building vignettes:
--- re-building 'intro.md' using mdweave_to_html
Evaluating code in block 'codeblock1'.
Error: processing vignette 'intro.md' failed with diagnostics:
Running '' had status 127; this generally means that '' could not be found. Make sure '' in on the path.
--- failed re-building 'intro.md'

SUMMARY: processing the following file failed:
  'intro.md'

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... OK
* DONE
Status: 1 ERROR, 1 WARNING