R Markdown: openBinaryFile: does not exist (No such file or directory)
r markdown on network drive
pandoc hclose: hardware fault (i/o error)
https mathjax rstudio com latest mathjax js config tex ams mml_htmlormml
error: pandoc document conversion failed with error 61
pandocexe openbinaryfile: permission denied (permission denied)
error: pandoc document conversion failed with error 2
I've developed a shiny app that allows user to download a HTML report via R Markdown. I'm trying to include custom css and images into my rmarkdown file. However, I keep getting this error message:
pandoc: Could not fetch (either css or image file) openBinaryFile: does not exist (No such file or directory)
When I knit the .rmd file on R Studio, it is able to reference the image file or css that I want. However, when I run the Shiny app and download the html file, I get the above error message. I've even tried to put the images and css files in the same working directory as the .rmd file, but to no avail...
output: html_document: css: pandoc.css (same error message as above)
Been trying to find a solution for this but can't seem to...can anyone help here?
I had a similar problem. I was not using the full file path. I was using ~/path/to/file. I changed it to the full path (i.e. removed the ~/) and it worked.
pandoc: openBinaryFile: does not exist (No such file or directory , pandoc: /tmp/RtmpW06rTD/rmarkdown-str3bc26dd971b5.html: openBinaryFile: does not exist (No such file or directory) . I am using Pandoc pandoc: Could not fetch figures/test.svg figures/test.svg: openBinaryFile: does not exist (No such file or directory) I would have thought by setting the root.dir to be the project directory, that pandoc will fetch files relative to that? But it seems that the "working directory" is always set to relative to the where the rmarkdown document is?
I just had this issue as well, but for me the reason was that the RStudio project was on a shared drive, and I had opened it through the network location. The problem was resolved when I closed out of the project, and opened it back up through a mapped network drive. (If when you run
getwd() your location starts with
\\, this is probably what is happening to you.)
pandoc: openFile: does not exist (No such file or directory) · Issue , However, it seems rmarkdown or pandoc is buggy. pandoc: openFile: does not exist (No such file or directory) #1268 and .utf8.md files are not available so the error regarding openBinaryFile seems to be simply because Test_file.html is created in working directory and Test_file_files directory too. However, pandoc does not seem to find the file and to convert it to a self_contained html. However, pandoc does not seem to find the file and to convert it to a self_contained html.
The issue that I had with RStudio & the pandoc error (openBinaryFile error) was due to the file path in which the project was created and loaded.
Project File Path
When I created the project, I created it using the Universal path, which is the 2nd option in the image above. However, when I changed this to the mapped drive letter, the option above it, my pandoc error was gone.
I'm running RStudio 1.2.1335 and R version 3.4.4
R Markdown: openBinaryFile: does not exist (No such file or directory), I had a similar problem. I was not using the full file path. I was using ~/path/to/file. I changed it to the full path (i.e. removed the ~/) and it worked. The following issue occurs for only on my MacPro (OSX Yosemite, most recent version). When I knit the sample R Markdown document to ioslides, I get: /usr/local/bin/pandoc +RTS -K512m -RTS test.utf8
I have been having a similar issue, with RStudio, rmarkdown and pandoc on a windows machine with network filestore. I followed various advice, mapped the drive to a letter and it still didn't help.
Eventually, I discovered that one of the paths in my libPaths contained the network location/Universal path. I updated that libpath to the mapped letter drive and everything seems to be going well! Hope this may be helpful to someone.
RMarkdown Knit to HTML, Word & PDF – CISER, Encountering errors attempting to knit your RMarkdown documents? pandoc.exe: \\: openBinaryFile: does not exist (No such file or directory) If the file does not exist and it is opened for output, it should be created as a new file. If mode is WriteMode and the file already exists, then it should be truncated to zero length. Some operating systems delete empty files, so there is no guarantee that the file will exist following an openFile with mode WriteMode unless it is subsequently written to successfully.
openBinaryFile: does not exist (No such file or directory) file http , does not exist (No such file or directory) I think there is Python, R, Relaxngcompact, Rhtml, Ruby, Scala, Scheme, Sci, Sed, Sgml, Sql, to markdown. So this R markdown does not create a pdf file Please also be aware of the fact that the tinytex R package does not file 'Lecture3_slides_060418.pdf' does not exist
Knitting Rmarkdown to Network Path in Rstudio Fails, test.utf8.md: openBinaryFile: does not exist (No such file or directory) new arbitrary letter and then opened my files anew via Rstudio's GUI. I was not aware of the RStudio HOME directory. Usually I work with RStudio Projects instead of some random R scripts and documents in a new RStudio session. In that way, RStudio sets the working directory to the project directory on start-up, and I do not need to worry about something like the HOME directory.
pandoc: : openFile: does not exist (No such file or directory , pandoc: : openFile: does not exist (No such file or directory) Args: -r markdown+simple_tables+table_captions+yaml_metadata_block Connect will not process any output files that exist outside the working directory of the report that is rendering. That means that you cannot use absolute paths (e.g., /root/file.csv) or relative paths (e.g., ../file.csv ).
- I got same error. Hope someone can fix it.
- Thanks @Haloom for the answer. Just to add on, for the benefit of everyone, Pandoc seems to be able to reference file path with empty spaces, so you can just reference it via "/Home/My Folder", no need for any escape backslash or quotes.
- how does one open a file "through a mapped network drive"? Thanks!
- First, you'll need to know the network location you're trying to access. Next, in the Windows file manager, you will need to right click on "This PC" on the right hand pane, and select "Map a network drive". Go through the dialogue to define the network location from earlier as a lettered drive. Now you have two ways to get to the file you're opening. Using the drive-letter path should work.
- Thanks @AColeman! Any idea WHY this issue might have emerged? I have no recollection of changing these types of directory settings.
- I think it's an issue with Pandoc, which rmarkdown inherits because it uses Pandoc. But truth be told I haven't looked into it that much since figuring out the work-around.