Greetings,
I can run and knit a basic .Rmd that only deals with reading and summarizing my data. However, once I add any sort of graph/plot, knit fails.
I’ve read about a lot of issues with knit but haven't found one that addresses my issue (at least not that I could tell).
For example, adding the code below produced a knit error.
# BOX PLOT
ggplot(data = dat1, mapping = aes(x = group.factor, y = bdi_total)) +
geom_boxplot()
The commands and errors are below:
/Applications/RStudio.app/Contents/MacOS/pandoc/pandoc +RTS -K512m -RTS Knit_PT_analyses.utf8.md --to html4 --from markdown+autolink_bare_uris+tex_math_single_backslash --output Knit_PT_analyses.html --smart --email-obfuscation none --self-contained --standalone --section-divs --template /Library/Frameworks/R.framework/Versions/3.5/Resources/library/rmarkdown/rmd/h/default.html --no-highlight --variable highlightjs=1 --variable 'theme:bootstrap' --include-in-header /var/folders/_z/cq1q31pn4f96303f_p64khkc0000gn/T//RtmpoH5Z4V/rmarkdown-str475879f8c71b.html --mathjax --variable 'mathjax-url:https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'
output file: Knit_PT_analyses.knit.md
pandoc: Could not fetch Knit_PT_analyses_files/figure-html/---> boxplot-1.png" width=“672” /></p>
</div>
</div>
</div>
<script>
// add bootstrap table styles to pandoc tables
function bootstrapStylePandocTables() {
$('tr.header').parent('thead').parent('table').addClass('table table-condensed');
}
$(document).ready(function () {
bootstrapStylePandocTables();
});
</script>
<!-- tabsets -->
<script>
$(document).ready(function () {
window.buildTabsets(
Knit_PT_analyses_files/figure-html/---> boxplot-1.png" width=“672” /></p>
</div>
</div>
</div>
<script>
// add bootstrap table styles to pandoc tables
function bootstrapStylePandocTables() {
$('tr.header').parent('thead').parent('table').addClass('table table-condensed');
}
$(document).ready(function () {
bootstrapStylePandocTables();
});
</script>
<!-- tabsets -->
<script>
$(document).ready(function () {
window.buildTabsets(: openBinaryFile: does not exist (No such file or directory)
Error: pandoc document conversion failed with error 67
Execution halted
Any suggestions on how to address this issue would be greatly appreciated.
Cheers,
Jason