diff --git a/.github/workflows/draft-pdf.yml b/.github/workflows/draft-pdf.yml new file mode 100644 index 0000000..ebf8bf9 --- /dev/null +++ b/.github/workflows/draft-pdf.yml @@ -0,0 +1,23 @@ +on: [push, workflow_dispatch] + +jobs: + paper: + runs-on: ubuntu-latest + name: Paper Draft + steps: + - name: Checkout + uses: actions/checkout@v4 + - name: Build draft PDF + uses: openjournals/openjournals-draft-action@master + with: + journal: joss + # This should be the path to the paper within your repo. + paper-path: paper/paper.md + - name: Upload + uses: actions/upload-artifact@v1 + with: + name: paper + # This is the output path where Pandoc will write the compiled + # PDF. Note, this should be the same directory as the input + # paper.md + path: paper/paper.pdf \ No newline at end of file diff --git a/.gitignore b/.gitignore index c258e19..9eb1fee 100644 --- a/.gitignore +++ b/.gitignore @@ -172,3 +172,5 @@ settings.json #files test.py context.py + +*.pdf \ No newline at end of file diff --git a/README.md b/README.md index 7270835..ab15063 100644 --- a/README.md +++ b/README.md @@ -13,7 +13,7 @@ --- -ZodiPy is an [Astropy affiliated](https://www.astropy.org/affiliated/) package, which simulates the zodiacal light in intensity that an arbitrary solar system observer is predicted to see given an interplanetary dust model and a scanning strategy, either in the form of timestreams or HEALPix maps. +ZodiPy is an [Astropy affiliated](https://www.astropy.org/affiliated/) package for simulating zodiacal light in intensity for arbitrary Solar system observers. ![plot](docs/img/zodipy_map.png) @@ -29,6 +29,7 @@ ZodiPy supports all Python versions >= 3.8, and has the following dependencies: - [NumPy](https://numpy.org/) - [healpy](https://healpy.readthedocs.io/en/latest/) - [jplephem](https://pypi.org/project/jplephem/) +- [SciPy](https://scipy.org/) # A simple example diff --git a/docs/index.md b/docs/index.md index 001e39c..8cacc43 100644 --- a/docs/index.md +++ b/docs/index.md @@ -8,7 +8,7 @@ [![arXiv Paper](https://img.shields.io/badge/arXiv-2205.12962-green?style=flat-square&logo=arxiv)](https://arxiv.org/abs/2205.12962) [![ascl:2306.012](https://img.shields.io/badge/ascl-2306.012-blue.svg?colorB=262255&style=flat-square)](https://ascl.net/2306.012) -ZodiPy is an [Astropy affiliated](https://www.astropy.org/affiliated/) package, which simulates the zodiacal light in intensity that an arbitrary solar system observer is predicted to see given an interplanetary dust model and a scanning strategy, either in the form of timestreams or HEALPix maps. +ZodiPy is an [Astropy affiliated](https://www.astropy.org/affiliated/) package for simulating zodiacal light in intensity for arbitrary Solar system observers. ![ZodiPy Logo](img/zodipy_map.png) diff --git a/docs/install.md b/docs/install.md index 002f597..32653af 100644 --- a/docs/install.md +++ b/docs/install.md @@ -12,7 +12,8 @@ pip install zodipy ## Dependencies ZodiPy has the following dependencies (these are automatically downloaded alongside ZodiPy): -- [numpy](https://numpy.org) -- [astropy](https://www.astropy.org) (>= 5.0.1) +- [Astropy](https://www.astropy.org) (>= 5.0.1) +- [NumPy](https://numpy.org) - [healpy](https://healpy.readthedocs.io/en/latest/) - [jplehem](https://pypi.org/project/jplephem/) +- [SciPy](https://scipy.org/) diff --git a/paper/paper.bib b/paper/paper.bib new file mode 100644 index 0000000..72d60f4 --- /dev/null +++ b/paper/paper.bib @@ -0,0 +1,233 @@ +@software{2011ascl.soft12014R, + author = {{Rhodes}, Brandon Craig}, + title = {{PyEphem: Astronomical Ephemeris for Python}}, + howpublished = {Astrophysics Source Code Library, record ascl:1112.014}, + year = 2011, + month = dec, + eid = {ascl:1112.014}, + adsurl = {https://ui.adsabs.harvard.edu/abs/2011ascl.soft12014R}, + adsnote = {Provided by the SAO/NASA Astrophysics Data System} +} + +@article{2023arXiv230617219A, + author = {{Aldering}, Greg and {Rubin}, David and {Rose}, Benjamin and {Hounsell}, Rebekah and {Perlmutter}, Saul and {Deustua}, Susana}, + title = {{Roman CCS White Paper: Balanced Prism Plus Filter Cadence in the High Latitude Time Domain Survey Core Community Survey}}, + journal = {arXiv e-prints}, + keywords = {Astrophysics - Instrumentation and Methods for Astrophysics, Astrophysics - Cosmology and Nongalactic Astrophysics}, + year = 2023, + month = jun, + eid = {arXiv:2306.17219}, + pages = {arXiv:2306.17219}, + doi = {10.48550/arXiv.2306.17219}, + archiveprefix = {arXiv}, + eprint = {2306.17219}, + primaryclass = {astro-ph.IM}, + adsurl = {https://ui.adsabs.harvard.edu/abs/2023arXiv230617219A}, + adsnote = {Provided by the SAO/NASA Astrophysics Data System} +} + +@article{2023arXiv230617226R, + author = {{Rose}, Benjamin and {Aldering}, Greg and {Hounsell}, Rebekah and {Joshi}, Bhavin and {Rubin}, David and {Scolnic}, Dan and {Perlmutter}, Saul and {Deustua}, Susana and {Sako}, Masao}, + title = {{Roman CCS White Paper: Considerations for Selecting Fields for the Roman High-latitude Time Domain Core Community Survey}}, + journal = {arXiv e-prints}, + keywords = {Astrophysics - Instrumentation and Methods for Astrophysics, Astrophysics - Cosmology and Nongalactic Astrophysics, Astrophysics - Astrophysics of Galaxies, Astrophysics - High Energy Astrophysical Phenomena}, + year = 2023, + month = jun, + eid = {arXiv:2306.17226}, + pages = {arXiv:2306.17226}, + doi = {10.48550/arXiv.2306.17226}, + archiveprefix = {arXiv}, + eprint = {2306.17226}, + primaryclass = {astro-ph.IM}, + adsurl = {https://ui.adsabs.harvard.edu/abs/2023arXiv230617226R}, + adsnote = {Provided by the SAO/NASA Astrophysics Data System} +} + +@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} +} + +@article{Avitan2023, + author = {Avitan, Or and Schechner, Yoav Y. and Behar, Ehud}, + journal = {IEEE Transactions on Pattern Analysis and Machine Intelligence}, + title = {Using Zodiacal Light For Spaceborne Calibration Of Polarimetric Imagers}, + year = {2023}, + volume = {}, + number = {}, + pages = {1-12}, + keywords = {Calibration;Scattering;Atmospheric modeling;Clouds;Sun;Earth;Space vehicles;Computational photography;Polarimetric calibration;Astronomy}, + doi = {10.1109/TPAMI.2023.3299526} +} + +@article{Hanzawa2024, + author = {Hanzawa, Masaki and Matsuura, Shuji and Takahashi, Aoi and Chary, Ranga-Ram and Sano, Kei and Takimoto, Kohji and Tome, Yuto}, + title = {{Measurement of the zodiacal light absolute intensity through Fraunhofer line spectroscopy of the night sky with the Hale telescope}}, + journal = {Publications of the Astronomical Society of Japan}, + pages = {psae016}, + year = {2024}, + month = {03}, + issn = {2053-051X}, + doi = {10.1093/pasj/psae016}, + url = {https://doi.org/10.1093/pasj/psae016}, + eprint = {https://academic.oup.com/pasj/advance-article-pdf/doi/10.1093/pasj/psae016/57049109/psae016.pdf} +} + +@article{Kelsall1998, + author = {{Kelsall}, T. and {Weiland}, J.~L. and {Franz}, B.~A. and {Reach}, W.~T. and {Arendt}, R.~G. and {Dwek}, E. and {Freudenreich}, H.~T. and {Hauser}, M.~G. and {Moseley}, S.~H. and {Odegard}, N.~P. and {Silverberg}, R.~F. and {Wright}, E.~L.}, + title = {{The COBE Diffuse Infrared Background Experiment Search for the Cosmic Infrared Background. 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XIV. Zodiacal emission}}, + journal = {\aap}, + keywords = {zodiacal dust, interplanetary medium, cosmic background radiation, Astrophysics - Cosmology and Nongalactic Astrophysics}, + year = 2014, + month = nov, + volume = {571}, + eid = {A14}, + pages = {A14}, + doi = {10.1051/0004-6361/201321562}, + archiveprefix = {arXiv}, + eprint = {1303.5074}, + primaryclass = {astro-ph.CO}, + adsurl = {https://ui.adsabs.harvard.edu/abs/2014A&A...571A..14P}, + adsnote = {Provided by the SAO/NASA Astrophysics Data System} +} + +@article{San2022, + author = {{San}, M. and {Herman}, D. and {Erikstad}, G.~B. and {Galloway}, M. and {Watts}, D.}, + title = {{COSMOGLOBE: Simulating zodiacal emission with ZodiPy}}, + journal = {\aap}, + keywords = {interplanetary medium, cosmic background radiation, zodiacal dust, Astrophysics - Earth and Planetary Astrophysics, Astrophysics - Instrumentation and Methods for Astrophysics}, + year = 2022, + month = oct, + volume = {666}, + eid = {A107}, + pages = {A107}, + doi = {10.1051/0004-6361/202244133}, + archiveprefix = {arXiv}, + eprint = {2205.12962}, + primaryclass = {astro-ph.EP}, + adsurl = {https://ui.adsabs.harvard.edu/abs/2022A&A...666A.107S}, + adsnote = {Provided by the SAO/NASA Astrophysics Data System} +} + +@article{scipy2020, + author = {Virtanen, Pauli and Gommers, Ralf and Oliphant, Travis E. and Haberland, Matt and Reddy, Tyler and Cournapeau, David and Burovski, Evgeni and Peterson, Pearu and Weckesser, Warren and Bright, Jonathan and {van der Walt}, St{\'e}fan J. and Brett, Matthew and Wilson, Joshua and Millman, K. 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A. and Harris, Charles R. and Archibald, Anne M. and Ribeiro, Ant{\^o}nio H. and Pedregosa, Fabian and {van Mulbregt}, Paul and {SciPy 1.0 Contributors}}, + title = {{{SciPy} 1.0: Fundamental Algorithms for Scientific Computing in Python}}, + journal = {Nature Methods}, + year = {2020}, + volume = {17}, + pages = {261--272}, + adsurl = {https://rdcu.be/b08Wh}, + doi = {10.1038/s41592-019-0686-2} +} + +@article{Tsumura2023, + author = {{Tsumura}, Kohji and {Matsuura}, Shuji and {Sano}, Kei and {Iwata}, Takahiro and {Yano}, Hajime and {Kitazato}, Kohei and {Takimoto}, Kohji and {Yamada}, Manabu and {Morota}, Tomokatsu and {Kouyama}, Toru and {Hayakawa}, Masahiko and {Yokota}, Yasuhiro and {Tatsumi}, Eri and {Matsuoka}, Moe and {Sakatani}, Naoya and {Honda}, Rie and {Kameda}, Shingo and {Suzuki}, Hidehiko and {Cho}, Yuichiro and {Yoshioka}, Kazuo and {Ogawa}, Kazunori and {Shirai}, Kei and {Sawada}, Hirotaka and {Sugita}, Seiji}, + title = {{Heliocentric distance dependence of zodiacal light observed by Hayabusa2\#}}, + journal = {Earth, Planets and Space}, + keywords = {Zodiacal light, Interplanetary dust, Hayabusa2\#, Astrophysics - Earth and Planetary Astrophysics}, + year = 2023, + month = dec, + volume = {75}, + number = {1}, + eid = {121}, + pages = {121}, + doi = {10.1186/s40623-023-01856-x}, + archiveprefix = {arXiv}, + eprint = {2303.07013}, + primaryclass = {astro-ph.EP}, + adsurl = {https://ui.adsabs.harvard.edu/abs/2023EP&S...75..121T}, + adsnote = {Provided by the SAO/NASA Astrophysics Data System} +} + +@article{Zonca2019, + doi = {10.21105/joss.01298}, + url = {https://doi.org/10.21105/joss.01298}, + year = {2019}, + publisher = {The Open Journal}, + volume = {4}, + number = {35}, + pages = {1298}, + author = {Andrea Zonca and Leo P. Singer and Daniel Lenz and Martin Reinecke and Cyrille Rosset and Eric Hivon and Krzysztof M. Gorski}, + title = {healpy: equal area pixelization and spherical harmonics transforms for data on the sphere in Python}, + journal = {Journal of Open Source Software} +} + +@article{Gorski2005, + author = {{G{\'o}rski}, K.~M. and {Hivon}, E. and {Banday}, A.~J. and {Wandelt}, B.~D. and {Hansen}, F.~K. and {Reinecke}, M. and {Bartelmann}, M.}, + title = "{HEALPix: A Framework for High-Resolution Discretization and Fast Analysis of Data Distributed on the Sphere}", + journal = {\apj}, + keywords = {Cosmology: Cosmic Microwave Background, Cosmology: Observations, Methods: Statistical, Astrophysics}, + year = 2005, + month = apr, + volume = {622}, + number = {2}, + pages = {759-771}, + doi = {10.1086/427976}, +archivePrefix = {arXiv}, + eprint = {astro-ph/0409513}, + primaryClass = {astro-ph}, + adsurl = {https://ui.adsabs.harvard.edu/abs/2005ApJ...622..759G}, + adsnote = {Provided by the SAO/NASA Astrophysics Data System} +} \ No newline at end of file diff --git a/paper/paper.md b/paper/paper.md new file mode 100644 index 0000000..6b9e5a5 --- /dev/null +++ b/paper/paper.md @@ -0,0 +1,89 @@ +--- +title: 'ZodiPy: A Python package for zodiacal light simulations' +tags: + - Python + - astronomy + - cosmology + - zodiacal light + - interplanetary dust +authors: + - name: Metin San + orcid: 0000-0003-4648-8729 + equal-contrib: true + affiliation: "1" +affiliations: + - name: Metin San, PhD. Fellow, University of Oslo, Norway + index: 1 +date: 10 April 2024 +bibliography: paper.bib + +# Optional fields if submitting to a AAS journal too, see this blog post: +# https://blog.joss.theoj.org/2018/12/a-new-collaboration-with-aas-publishing +# aas-doi: 10.3847/xxxxx <- update this with the DOI from AAS once you know it. +# aas-journal: Astrophysical Journal <- The name of the AAS journal. +--- + + +# Summary +`ZodiPy` is an Astropy-affiliated Python package for zodiacal light simulations. +Its purpose is to provide the astrophysics and cosmology communities with an +accessible and easy-to-use Python interface to existing zodiacal light models, +assisting in the analysis of infrared astrophysical data and enabling quick and easy +zodiacal light forecasting for future experiments. `ZodiPy` implements the +@Kelsall1998 and the @Planck2014 interplanetary dust models, which allow for +zodiacal light simulations between $1.25-240\mu$m and $30-857$GHz, respectively, +with the possibility of extrapolating the models to other frequencies. + +# Statement of need +Zodiacal light is the main source of diffuse radiation observed in the infrared +sky between $1-100\mu$m. The light comes from scattering and re-emission of +sunlight by dust grains in the interplanetary medium. Zodiacal light is one of the +most challenging foregrounds to model in cosmological studies of the Extragalactic +Background Light (EBL) in the infrared sky, primarily due to its seasonal nature. + +Traditionally, observers of the infrared sky have had to build their own zodiacal +light tools (see the +[LAMBDA foreground models page](https://lambda.gsfc.nasa.gov/product/foreground/fg_models.html) +for a list of existing tools). However, these programs are either +only usable for specific experiments or otherwise difficult to access by requiring +licensed programming languages or the use of web interfaces. Modern astronomy and +cosmology pipelines are commonly built in Python due to the wide range of available +high-quality tools and open-source projects and communities, such as the Astropy +project [@astropy]. The lack of a general-purpose zodiacal light tool in this space +was the primary motivation behind the development of the `ZodiPy` package. + +`ZodiPy` can be used to simulate zodiacal light for arbitrary Solar system observers, +meaning that researchers no longer have to spend time developing their own tools from +scratch. To use `ZodiPy`, the user is required to provide the following data: + +1) A sequence of pointings, either in ecliptic or galactic coordinates. These can +be specified as angles on the sky or as HEALPix [@Gorski2005] pixel indices. +2) A center frequency or an instrument bandpass. +3) Time of observation, corresponding to the pointing sequence. +4) The heliocentric ecliptic position of the observer. If the observer is located +at a major Solar system object, such as the Earth or the Sun-Earth-Moon barycenter +L2, the position is instead queried through the `astropy.coordinates` Solar system +ephemerides. + +The predicted zodiacal light is then obtained by evaluating a sequence of +line-of-sight integrals from the position of the observer and through a +model of the three-dimensional interplanetary dust distribution. For +implementation details and examples of how to apply `ZodiPy` to a real-world +dataset, see @San2022. + +`ZodiPy` has been rapidly adopted by the astronomy community, and the package has +already been used by several research projects (see @2023arXiv230617219A; +@2023arXiv230617226R; @Tsumura2023; @Avitan2023; @Hanzawa2024), for instance in +assisting the coming NASA Roman Space Telescope in determining its observational +fields, or to modeling data obtained aboard the Hayabusa2 JAXA satellite. + +# Acknowledgements +This work has received funding from the European Union’s Horizon 2020 research and +innovation programme under grant agreement numbers 819478 (ERC; Cosmoglobe) and +772253 (ERC;bits2cosmology). + +This project uses the following Python packages: Astropy [@astropy], NumPy +[@numpy2011; @numpy2020], healpy [@Zonca2019], SciPy [@scipy2020], and jplephem +[@2011ascl.soft12014R]. + +# References \ No newline at end of file diff --git a/poetry.lock b/poetry.lock index 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