Put hyperlinks in bibliography

[quantitative-technologies]

All my bibliography entries have URL links to arXiv, doi, a direct link to a pdf version of the paper, etc...

However, these links are not clickable. Wouldn't it be better if they were?

[krassowski]

Thanks for the suggestion. Could you please post a screenshot of the element where links are not clickable that you are referring too?

[quantitative-technologies]

Hello. Yes, here are the first couple of entries in the bibliography. Nothing is clickable in the bibliograpy, even though these are URLs:

[krassowski]

I get it now, thanks!

It looks like citeproc-js has a built-in, undocumented, extension which is off by default which allows to achieve that. It is called wrap_url_and_doi and the fix may be as simple as enabling it (if user chooses to do so).

I also considered re-using the JupyterLab autolinking code. It would require some modofications or a strong assumption that there is no formatting HTML in the URL as returned by cireproc-js. In either case, we must rely on implementation detail of citeproc-js, so I lean towards the first solution (enabling wrap_url_and_doi).

Conveniently I left a comment on how to enable development extensions:

jupyterlab-citation-manager/src/index.ts

Line 889 in 354a51a

// engine.opt.development_extensions.apply_citation_wrapper = true;

I believe that user should be able to turn it off, so we would need to have an extra setting as in the case of linkToBibliography which was added in #42.

[quantitative-technologies]

OK, thanks. I'm afraid I'm not familiar with citeproc-js, so I probably will not attempt to enable wrap_url_and_doi myself.

[krassowski]

This feature was just released in version 0.3.0; for now it is enabled by default (and can be disabled in settings), but in the future we can revise whether most users want it on or off by default.

[krassowski]

We could also think about styling it so that the link color is not as bright blue? Please let me know what you think.

[quantitative-technologies]

I upgraded to try it out. The existing bibliography looks the same as before, I guess to be expected.

However, when I click the insert bibliography button, it just puts:

<!-- BIBLIOGRAPHY START -->
<div class="csl-bib-body">
</div>
<!-- BIBLIOGRAPHY END -->

Did I do something wrong?

[krassowski]

• Do you see the new setting in the Advanced Settings Editor?
• Is there any error in web developer console tab?

[krassowski]

Also, what version of JupyterLab are you using? I would recommend the latest 3.3 (I do not have bandwidth to support older versions on this project).

[quantitative-technologies]

I tried again and it works just fine:

I don't know what i did wrong, maybe forgot to restart jupyter-lab? I'm using version 3.2.9 btw.

As far as appearance, I think it looks good as is!

What happened though, is I found that a jupyter notebook was not suitable for sharing my work (e.g. it does not support foldable code outputs, and including images did not work nicely: HTML code cannot be hidden but is needed AFAIK to resize the image, and so on...)

So I made a jupyter-book. This has its own system for the bibliography, using a .bib file. Here is what the result looks like:

The thing is I missed your plugin for adding the references to the jupyter-book document using jupyter-lab. I had to copy and paste the identifier from the .bib file each time. But I supposed that would be for a different plugin...