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Reputation: 1035

Rmarkdown: how to import all the *.bib files in a directory for bibliography?

In Rmarkdown file, how to import all the *.bib files in a directory for bibliography?

I have the following file tree

./
./the_Rmd_file_in_question.Rmd
./includes/
./includes/x.bib
./includes/y.bib
...

The followings don't work.

bibliography: 
  - ./includes/*.bib

or

bibliography: 
   `r library(stringr); str_replace(list.files(path = './report/includes/', pattern = '^.+\\.bib$', full.names = TRUE), pattern = './\\w+/', replacement = './')`

Upvotes: 2

Views: 307

Answers (1)

user2554330
user2554330

Reputation: 44788

You can do this, but it's a little tricky. What Pandoc wants to see in the bibliography field is something like

bibliography: ["file1.bib", "file2.bib"]

I can get that with this code:

bibliography: ["`r paste(c('file1.bib', 'file2.bib'), collapse='\",\"')`"]

Given your updated structure of the directory, I think this should work:

bibliography: ["`r paste(list.files(path = './includes', pattern = '^.+\\.bib$', full.names = TRUE), collapse='\",\"')`"]

The list.files() call will give you usable names, you don't need to modify it.

Upvotes: 3

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