[Bioc-devel] Request for advice on ANCOMBC package error messages in Linux platform

[Huang Lin (Frederick)]

Dear BioC team,



I am the creator of the ANCOMBC package (
http://bioconductor.org/packages/release/bioc/html/ANCOMBC.html).



Recently, I committed a bug-fixed change to the ANCOMBC package.
Unfortunately, I received error messages for both Bioc 3.16 and 3.17. The
error occurred ONLY on the Linux platform (nebbiolo2 for Bioc 3.16, and
nebbiolo1 for Bioc 3.17), stating a vignette re-building error that :


Error(s) in re-building vignettes:

  ...

--- re-building ‘ANCOM.Rmd’ using rmarkdown

--- finished re-building ‘ANCOM.Rmd’



--- re-building ‘ANCOMBC.Rmd’ using rmarkdown

--- finished re-building ‘ANCOMBC.Rmd’



--- re-building ‘ANCOMBC2.Rmd’ using rmarkdown

Quitting from lines 1093-1103 (ANCOMBC2.Rmd)

Error: processing vignette 'ANCOMBC2.Rmd' failed with diagnostics:

object 'out' not found

--- failed re-building ‘ANCOMBC2.Rmd’



--- re-building ‘SECOM.Rmd’ using rmarkdown

--- finished re-building ‘SECOM.Rmd’



SUMMARY: processing the following file failed:

  ‘ANCOMBC2.Rmd’



Error: Vignette re-building failed.

Execution halted



The package works fine with Windows and macOS platforms.



As the release date for Bioc 3.17 is approaching, I would greatly
appreciate your advice on how to address this issue in a timely manner.



Thank you very much!


Best,

Huang Lin

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