search

Yikun / BBS

The Bioconductor Build System
0 stars 0 forks source link

ELMER.build #69

Open martin-g opened 1 year ago

martin-g commented 1 year ago 
biocbuild@kunpeng1 ~/git> R CMD build --keep-empty-dirs --no-resave-data ELMER
* checking for file ‘ELMER/DESCRIPTION’ ... OK
* preparing ‘ELMER’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘analysis_data_input.Rmd’ using rmarkdown
--- finished re-building ‘analysis_data_input.Rmd’

--- re-building ‘analysis_diff_meth.Rmd’ using rmarkdown
--- finished re-building ‘analysis_diff_meth.Rmd’

--- re-building ‘analysis_get_pair.Rmd’ using rmarkdown
--- finished re-building ‘analysis_get_pair.Rmd’

--- re-building ‘analysis_gui.Rmd’ using rmarkdown
--- finished re-building ‘analysis_gui.Rmd’

--- re-building ‘analysis_motif_enrichment.Rmd’ using rmarkdown
--- finished re-building ‘analysis_motif_enrichment.Rmd’

--- re-building ‘analysis_regulatory_tf.Rmd’ using rmarkdown
Quitting from lines 93-103 (analysis_regulatory_tf.Rmd) 
Quitting from lines 93-103 (analysis_regulatory_tf.Rmd) 
Error: processing vignette 'analysis_regulatory_tf.Rmd' failed with diagnostics:
argument is of length zero
--- failed re-building ‘analysis_regulatory_tf.Rmd’

--- re-building ‘index.Rmd’ using rmarkdown
--- finished re-building ‘index.Rmd’

--- re-building ‘input.Rmd’ using rmarkdown
--- finished re-building ‘input.Rmd’

--- re-building ‘pipe.Rmd’ using rmarkdown
--- finished re-building ‘pipe.Rmd’

--- re-building ‘plots_TF.Rmd’ using rmarkdown
Quitting from lines 41-46 (plots_TF.Rmd) 
Error: processing vignette 'plots_TF.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘plots_TF.Rmd’

--- re-building ‘plots_heatmap.Rmd’ using rmarkdown
--- finished re-building ‘plots_heatmap.Rmd’

--- re-building ‘plots_motif_enrichment.Rmd’ using rmarkdown
--- finished re-building ‘plots_motif_enrichment.Rmd’

--- re-building ‘plots_scatter.Rmd’ using rmarkdown
--- finished re-building ‘plots_scatter.Rmd’

--- re-building ‘plots_schematic.Rmd’ using rmarkdown
--- finished re-building ‘plots_schematic.Rmd’

--- re-building ‘usecase.Rmd’ using rmarkdown
--- finished re-building ‘usecase.Rmd’

SUMMARY: processing the following files failed:
  ‘analysis_regulatory_tf.Rmd’ ‘plots_TF.Rmd’

Error: Vignette re-building failed.
Execution halted
martin-g commented 1 year ago

I wasn't able to find a Github repo for ELMER.

The best place to report the issue would be https://support.bioconductor.org/ https://bioconductor.org/packages/release/bioc/html/ELMER.html says Maintainer: Tiago Chedraoui Silva <tiagochst at usp.br> We could do this for 3.18.