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hexylena / docker-rstudio-notebook

RStudio as a Galaxy Interactive Environment
MIT License
5 stars 17 forks source link

Some error when you render the new MD files #39

Closed bgruening closed 11 months ago

bgruening commented 11 months ago

I'm not sure this is our fault, but documenting it here. Maybe someone has an idea.


ERROR: PermissionDenied: Permission denied (os error 13)

PermissionDenied: Permission denied (os error 13)
    at makeTempDirSync (deno:runtime/js/30_fs.js:80:16)
    at file:///usr/lib/rstudio-server/bin/quarto/bin/quarto.js:5958:29
    at withAttempts (file:///usr/lib/rstudio-server/bin/quarto/bin/quarto.js:5917:20)
    at Object.makeTempDirSync (file:///usr/lib/rstudio-server/bin/quarto/bin/quarto.js:5958:12)
    at initSessionTempDir (file:///usr/lib/rstudio-server/bin/quarto/bin/quarto.js:47815:20)
    at quarto (file:///usr/lib/rstudio-server/bin/quarto/bin/quarto.js:127537:5)
    at file:///usr/lib/rstudio-server/bin/quarto/bin/quarto.js:127557:15
``
bgruening commented 11 months ago

https://github.com/quarto-dev/quarto-cli/issues/4594 seems related.

bgruening commented 11 months ago

Its actually not that. Its wrong permissions in the container.

chmod 777 \$TMPDIR &&

as part of the XML is fixing it. https://github.com/usegalaxy-eu/galaxy/commit/f42292f8c20cacca30dd117779836ee769caf703