I have a bibliography file with many citations, and a variety of jupyter notebooks which refer to these. Previously these were processed using jupyter book, but I now need to create raw notebook versions.<div><br /></div><div>With that in mind I tried this</div><div><br /></div><div>Create a simple bibliography 'bib.bib'</div><div><br /></div><div>@article{smid_development_2021,<br />     title = {Development of the {Advanced} {Encryption} {Standard}},<br />     volume = {126},<br />     url = {https://www.nist.gov/publications/development-advanced-encryption-standard},<br />     abstract = {Strong cryptographic algorithms are essential for the protection of stored and transmitted data throughout the world.},<br />     language = {en},<br />     urldate = {2023-05-17},<br />     journal = {NIST},<br />     author = {Smid, Miles E. and Foti, James},<br />     month = aug,<br />     year = {2021},<br />     note = {Last Modified: 2021-10-14T05:10-04:00<br /> Publisher: Miles E. Smid, James Foti},<br />     file = {Full Text PDF:/Users/dasc/Zotero/storage/5YCK8JKG/Smid and Foti - 2021 - Development of the Advanced Encryption Standard.pdf:application/pdf},<br />}<br /></div><div><br /></div><div>Now create a simple notebook in lesson1.ipynb with a single reference of the form AES[@smid_development_2021] or in full:</div><div><br /></div><div>{<br /> "cells": [<br />  {<br />   "cell_type": "code",<br />   "execution_count": null,<br />   "id": "364e8ef9-eebe-4da8-b3e2-0005c94392ae",<br />   "metadata": {},<br />   "outputs": [],<br />   "source": [<br />    "# Test document for pandoc\n",<br />    "\n",<br />    "We have just one article on the development of AES[@smid_development_2021]\n",<br />    "\n",<br />    "# References\n",<br />    "\n"<br />   ]<br />  }<br /> ],<br /> "metadata": {<br />  "kernelspec": {<br />   "display_name": "Python 3 (ipykernel)",<br />   "language": "python",<br />   "name": "python3"<br />  },<br />  "language_info": {<br />   "codemirror_mode": {<br />    "name": "ipython",<br />    "version": 3<br />   },<br />   "file_extension": ".py",<br />   "mimetype": "text/x-python",<br />   "name": "python",<br />   "nbconvert_exporter": "python",<br />   "pygments_lexer": "ipython3",<br />   "version": "3.11.4"<br />  }<br /> },<br /> "nbformat": 4,<br /> "nbformat_minor": 5<br />}<br /></div><div><br /></div><div>I also want these citations in IEEE format, so download</div><div><br /></div><div>https://github.com/citation-style-language/styles/blob/master/ieee.csl<br /></div><div><br /></div><div>I then experimented with pandoc, but so far I've nott been able to get references resolved.</div><div><br /></div><div>I then invoke </div><div><br /></div><div>pandoc -f ipynb -t ipynb --citeproc lesson1.ipynb -o lesson1-withrefs.ipynb --bibliography bib.bib --csl ieee.csl<br /></div><div><br /></div><div>But the output virtually identical to input, other than minor metadata differences</div><div><br /></div><div>{<br /> "cells": [<br />  {<br />   "cell_type": "code",<br />   "execution_count": null,<br />   "metadata": {},<br />   "outputs": [],<br />   "source": [<br />    "# Test document for pandoc\n",<br />    "\n",<br />    "We have just one article on the development of AES[@smid_development_2021]\n",<br />    "\n",<br />    "# References\n",<br />    "\n"<br />   ],<br />   "id": "364e8ef9-eebe-4da8-b3e2-0005c94392ae"<br />  }<br /> ],<br /> "nbformat": 4,<br /> "nbformat_minor": 5,<br /> "metadata": {<br />  "kernelspec": {<br />   "name": "python3",<br />   "display_name": "Python 3 (ipykernel)",<br />   "language": "python"<br />  },<br />  "language_info": {<br />   "name": "python",<br />   "codemirror_mode": {<br />    "name": "ipython",<br />    "version": "3"<br />   },<br />   "file_extension": ".py",<br />   "mimetype": "text/x-python",<br />   "nbconvert_exporter": "python",<br />   "pygments_lexer": "ipython3",<br />   "version": "3.11.4"<br />  }<br /> }<br />}<br /></div><div><br /></div><div>I then tried other variations such as writing to html, or markdown (gfm), but wasn't able to get the references expanded.</div><div><br /></div><div>I WAS able to process the bibliography references completely in another test using a markdown input file of </div><div><br /></div><div>---<br /># Reference<br />bibliography: references.bib<br />link-citations: true<br />csl: ieee.csl<br />nocite: "@*"<br />---<br /></div><div><br /></div><div>and appropriate invocation changes</div><div><br /></div><div>So I presume I've made a really simple/silly mistake, but I've yet to figure out where.</div><div><br /></div><div>Can anyone spot the obvious error?</div><div><br /></div><div>Many thanks</div><div>Nigel Jones</div><div><br /></div><div><br /></div><div><br /></div><div><br /></div><div><br /></div>

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