[Bioc-devel] Vignette building fails

[Fan, Jean]

Hello,

I recently updated my bioconductor package via svn. The package was built successfully on my computer via R CMD build scde and passed R CMD check scde and R CMD BiocCheck scde. But the build report on Bioconductor ran into the following errors when building the vignettes:

* checking for file ‘scde/DESCRIPTION’ ... OK
* preparing ‘scde’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
Loading required package: flexmix
Loading required package: lattice
Error: processing vignette 'diffexp.Rmd' failed with diagnostics:
Failed to locate the ‘weave’ output file (by engine ‘knitr::rmarkdown’) for vignette with name ‘diffexp’. The following files exist in directory ‘.’: ‘diffexp.R’, ‘diffexp.Rmd’, ‘diffexp.md’, ‘pagoda.Rmd’
Execution halted

I was able to build the vignettes locally using R CMD Sweave so I’m not sure what’s wrong. I haven’t been able to find any solutions by Googling around. Has anyone else encountered this error before?

Thanks,
Jean

Jean Fan
PhD Candidate
NSF GRFP
Kharchenko Lab
Harvard University
10 Shattuck St #3, Countway 336B
Boston, MA 02115

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