Using numeric citations removes the final bibliography list

[lmmx]

After setting cite_options(cite.style="numeric"), #26 , I get numbered citations as desired, but subsequently no final references list is produced at the end of the document. I tried changing cite.style back to default "authoryear" at the end of my document but the first setting overrides it.

Is it possible to get this?

• The superscript doesn't work properly for me either, but not producing a final bibliography is the main issue.
• I'm also wondering if it'd be possible to switch the [1;2] inline numeric citation style to (1, 2) etc., but it seems to be hardcoded? Trying (naively) to simply rewrite the apparent function fails:

citepcomma <- function (x, ...) { bib <- do.call(c, lapply(x, knit_cite, ...)) citation_format <- getOption("citation_format", "text") if (citation_format == "pandoc") paste0("(", paste0("@", sapply(bib, function(b) b$key), collapse = ", "), ")") else Citep(bib, ...) }

citepc(c("10.1038/nrc3690","10.1126/science.7529940")) Error in match.fun(FUN) : object 'knit_cite' not found

[cboettig]

Thanks for the report. Are you sure you're setting cite_options at the top of the file? It seems to work for me:

> library(knitcitations)
citet> cite_options(cite.style='numeric')
> citep(c("10.1038/nrc3690","10.1126/science.7529940"))
[1] "[1; 2]"
> bibliography()
[1] T. L. Nero, C. J. Morton, J. K. Holien, J. Wielens, et al.
“Oncogenic protein interfaces: small molecules, big challenges”. In:
_Nat Rev Cancer_ 14.4 (Mar. 2014), pp. 248-262. DOI: 10.1038/nrc3690.
<URL: http://dx.doi.org/10.1038/nrc3690>.

[2] T. Clackson and J. Wells. “A hot spot of binding energy in a
hormone-receptor interface”. In: _Science_ 267.5196 (Jan. 1995), pp.
383-386. DOI: 10.1126/science.7529940. <URL:
http://dx.doi.org/10.1126/science.7529940>.
> 

You're correct that toggling the cite.style at the end will make an empty bibliography, because no citations have been recorded in the new cite.style.

You can change the punctuation (see ?BibOptions, it just isn't documented). Try:

cite_options(cite.style='numeric', bibpunct=c('(', ')', '(', ')', ',', ','))
citep(c("10.1038/nrc3690","10.1126/science.7529940"))

bibpunct is a bit crude at the moment: the first two are the delimiters for the author-year format (parentheses by default), the second two the delimiters for the numeric format (square braces by default, which I change above to parentheses), then the separation for the numerics (changed from semicolon to comma), and then the year separator).

Open to better ideas on how to do that. sorry for the slow reply, have been traveling.

[cboettig]

I think this issue is resolved by bibpunct and the order of operations, allbeit perhaps not ideally. So I will close for now, though PR on alternative approaches always welcome.

[sobradob]

Hi,

I am having similar issues.

{r}
summary(cars)
library(knitcitations)
  library(bibtex)
cite_options(cite.style="numeric")

This gives me numeric citations but no reference whilst putting the code below gives me a reference but no numeric citations.

{r}
summary(cars)
library(knitcitations)
  library(bibtex)
cite_options(citation_format = "pandoc", check.entries=FALSE, cite.style="numeric")

errExample.txt

Its my first attempt at using the package, so I might be doing something wrong.

[cboettig]

thanks, I'll try and take a look soon