test with working files

paper/paper-1.bib

@@ -0,0 +1,59 @@
+@article{Pearson:2017,
+  	url = {http://adsabs.harvard.edu/abs/2017arXiv170304627P},
+  	Archiveprefix = {arXiv},
+  	Author = {{Pearson}, S. and {Price-Whelan}, A.~M. and {Johnston}, K.~V.},
+  	Eprint = {1703.04627},
+  	Journal = {ArXiv e-prints},
+  	Keywords = {Astrophysics - Astrophysics of Galaxies},
+  	Month = mar,
+  	Title = {{Gaps in Globular Cluster Streams: Pal 5 and the Galactic Bar}},
+  	Year = 2017
+}
+
+@book{Binney:2008,
+  	url = {http://adsabs.harvard.edu/abs/2008gady.book.....B},
+  	Author = {{Binney}, J. and {Tremaine}, S.},
+  	Booktitle = {Galactic Dynamics: Second Edition, by James Binney and Scott Tremaine.~ISBN 978-0-691-13026-2 (HB).~Published by Princeton University Press, Princeton, NJ USA, 2008.},
+  	Publisher = {Princeton University Press},
+  	Title = {{Galactic Dynamics: Second Edition}},
+  	Year = 2008
+}
+
+@article{gaia,
+    author = {{Gaia Collaboration}},
+    title = "{The Gaia mission}",
+    journal = {Astronomy and Astrophysics},
+    archivePrefix = "arXiv",
+    eprint = {1609.04153},
+    primaryClass = "astro-ph.IM",
+    keywords = {space vehicles: instruments, Galaxy: structure, astrometry, parallaxes, proper motions, telescopes},
+    year = 2016,
+    month = nov,
+    volume = 595,
+    doi = {10.1051/0004-6361/201629272},
+    url = {http://adsabs.harvard.edu/abs/2016A%26A...595A...1G},
+}
+
+@article{astropy,
+    author = {{Astropy Collaboration}},
+    title = "{Astropy: A community Python package for astronomy}",
+    journal = {Astronomy and Astrophysics},
+    archivePrefix = "arXiv",
+    eprint = {1307.6212},
+    primaryClass = "astro-ph.IM",
+    keywords = {methods: data analysis, methods: miscellaneous, virtual observatory tools},
+    year = 2013,
+    month = oct,
+    volume = 558,
+    doi = {10.1051/0004-6361/201322068},
+    url = {http://adsabs.harvard.edu/abs/2013A%26A...558A..33A}
+}
+
+@misc{fidgit,
+  author = {A. M. Smith and K. Thaney and M. Hahnel},
+  title = {Fidgit: An ungodly union of GitHub and Figshare},
+  year = {2020},
+  publisher = {GitHub},
+  journal = {GitHub repository},
+  url = {https://github.com/arfon/fidgit}
+}

paper/paper-1.md

@@ -0,0 +1,82 @@
+---
+title: 'GrIML: A Python package for examining Greenland's ice marginal lakes under a changing climate'
+tags:
+  - Python
+  - glaciology
+  - cryospheric sciences
+  - remote sensing
+  - greenland
+  - kalaallit nunaat
+authors:
+  - name: Penelope R. How
+    orcid: 0000-0002-8088-8497
+    corresponding: true # (This is how to denote the corresponding author)
+    affiliation: 1
+affiliations:
+  - name: Department of Glaciology and Climate, Geological Survey of Denmark and Greenland (GEUS), Copenhagen, Denmark
+   index: 1   
+date: 3 May 2024
+bibliography: paper.bib
+
+---
+
+# Summary
+
+- GrIML post-processing toolbox description
+- GrIML project aim and outline
+- GrIML datasets
+- Similar toolboxes
+
+Citations to entries in paper.bib should be in [rMarkdown](http://rmarkdown.rstudio.com/authoring_bibliographies_and_citations.html) format.
+
+If you want to cite a software repository URL (e.g. something on GitHub without a preferred citation) then you can do it with the example BibTeX entry below for @fidgit.
+
+For a quick reference, the following citation commands can be used:
+- `@author:2001`  ->  "Author et al. (2001)"
+- `[@author:2001]` -> "(Author et al., 2001)"
+- `[@author1:2001; @author2:2001]` -> "(Author1 et al., 2001; Author2 et al., 2002)"
+
+Single dollars ($) are required for inline mathematics e.g. $f(x) = e^{\pi/x}$
+
+Double dollars make self-standing equations:
+
+$$\Theta(x) = \left\{\begin{array}{l}
+0\textrm{ if } x < 0\cr
+1\textrm{ else}
+\end{array}\right.$$
+
+You can also use plain \LaTeX for equations
+\begin{equation}\label{eq:fourier}
+\hat f(\omega) = \int_{-\infty}^{\infty} f(x) e^{i\omega x} dx
+\end{equation}
+and refer to \autoref{eq:fourier} from text.
+
+Figures can be included like this:
+
+![Caption for example figure.\label{fig:example}](https://raw.githubusercontent.com/PennyHow/GrIML/blob/main/other/reporting/figures/workflow_revised.jpg)
+
+and referenced from text using \autoref{fig:example}.
+
+Figure sizes can be customized by adding an optional second parameter:
+
+![Caption for example figure.](https://raw.githubusercontent.com/PennyHow/GrIML/blob/main/other/reporting/figures/workflow_revised.jpg){ width=20% }
+
+
+# Statement of need
+
+- Need for reproducibility and transparency
+- Outlines criteria for ice marginal lake classification
+
+
+# Usage
+
+- Use in GrIML inventory series generation
+
+
+# Acknowledgements
+
+This work is supported by the ESA Living Planet Fellowship (4000136382/21/I-DT-lr) entitled "Examining Greenland's Ice Marginal Lakes under a Changing Climate". Further support is provided by [PROMICE](https://promice.org], funded by the [Geological Survey of Denmark and Greenland (GEUS)](https://www.geus.dk/) and the Danish Ministry of Climate, Energy and Utilities under the Danish Cooperation for Environment in the Arctic (DANCEA).
+
+
+# References
+