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kgori / sigfit

Flexible Bayesian inference of mutational signatures
GNU General Public License v3.0
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install sigfit: Pandoc is required to build R Markdown vignettes but not available. #61

Closed jingydz closed 2 years ago

jingydz commented 2 years ago

devtools::install_github("kgori/sigfit", build_vignettes = TRUE, build_opts = c("--no-resave-data", "--no-manual")) Downloading GitHub repo kgori/sigfit@HEAD ✔ checking for file ‘/tmp/RtmpxrboeS/remotes336b231489cc/kgori-sigfit-46e89a1/DESCRIPTION’ ... ─ preparing ‘sigfit’: ✔ checking DESCRIPTION meta-information ... ─ cleaning src ─ installing the package to build vignettes E creating vignettes (3m 7.4s) --- re-building ‘sigfit_vignette.Rmd’ using rmarkdown Error: processing vignette 'sigfit_vignette.Rmd' failed with diagnostics: Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed. --- failed re-building ‘sigfit_vignette.Rmd’

SUMMARY: processing the following file failed: ‘sigfit_vignette.Rmd’

Error: Vignette re-building failed. Execution halted Error: Failed to install 'sigfit' from GitHub: System command 'R' failed, exit status: 1, stdout & stderr were printed

baezortega commented 2 years ago

Hello, you should be able to install pandoc with sudo apt-get install pandoc