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markovmodel / pyemma_tutorials

How to analyze molecular dynamics data with PyEMMA
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Citations in notebooks #105

Closed marscher closed 6 years ago

marscher commented 6 years ago

As it has been requested during the seminar, we should include citations in the notebooks. There is a nice (and working) extension, which has support for bibtex.

It works by having a secret cell (by notebook) or a bibliography.ipynb (shared) containing the references. Inserting citations is super easy and the references will be updated by clicking one button.

https://github.com/Calysto/notebook-extensions/blob/master/Screenshot%20from%202017-08-09%2019-48-12.png

If we want to use it, I can make this extension available on conda-forge.

ATM: it can be installed via conda install calysto-nb-extensions blas -c defusco

cwehmeyer commented 6 years ago

Let's test it first.

We have a bibtex file (in the manuscript repository) where I would like to collect all citations. Can we import this file somehow into the notebooks?

marscher commented 6 years ago

On 12.07.2018 10:53, Christoph Wehmeyer wrote:

Let's test it first.

We have a bibtex file (in the manuscript repository) where I would like to collect all citations. Can we import this file somehow into the notebooks?

I guess we can import it with a manual step (citations do not change all the time, so this should be fine) - or provide a script which generates the Bibliography.ipynb

The only difference to the input bib file is the wrapping with the

tags
marscher commented 6 years ago

Since the output of this extension is static text, we do not need the user to install anything!