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https://github.com/karthik/software-mapping-workshop

Slides, notes, and resources for the CZI Essentials of Open Source grantee meeting, December 9th, 2020
https://github.com/karthik/software-mapping-workshop

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Slides, notes, and resources for the CZI Essentials of Open Source grantee meeting, December 9th, 2020

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# Mapping the Research Software Ecosystem

CZI workshop, December 9th, 2020, 11:30am



[![](https://i.imgur.com/FWtkRO9.jpg)](https://inundata.org/talks/eoss-software-map/)



🖼️ Slides: [https://inundata.org/talks/eoss-software-map/](https://inundata.org/talks/eoss-software-map/)  

đź“‘ [PDF copy of slides](https://github.com/karthik/software-mapping-workshop/blob/main/mapping_the_research_software_ecosystem.pdf)



# Questions and notes



đź“ť  [Google doc with questions and notes](https://docs.google.com/document/d/1igkA6jUfVaDp-0U6Sa8peq8_64URa3-ra41a79bCuEk/edit). Please add your name next to your comment.



## Discussion Questions



- Q1.  **Which packages are increasingly used together in scientific workflows?**  [(direct link to notes)](https://docs.google.com/document/d/1igkA6jUfVaDp-0U6Sa8peq8_64URa3-ra41a79bCuEk/edit#heading=h.enn619vudkpz)

  - How might the map assist with how you know and interact with your project’s upstream and downstream dependencies?

  - Can funding help make software more compatible?



- Q2. **What groups of interdependent software are increasingly important for scientific fields?** [(direct link to notes)](https://docs.google.com/document/d/1igkA6jUfVaDp-0U6Sa8peq8_64URa3-ra41a79bCuEk/edit#heading=h.5vniaindpew7)

  - How visible is their importance? Can directed funding ensure the stability and maturity of critical dependencies and tool networks?

  - Does indirect usage do the work needed to demonstrate impact (with funders, with evaluators?)



- Q3. **Which software components are seeing use outside their areas of original development?** [(direct link to notes)](https://docs.google.com/document/d/1igkA6jUfVaDp-0U6Sa8peq8_64URa3-ra41a79bCuEk/edit#heading=h.hii6g197sbsk)

  - Can funded interventions shore up interdisciplinary opportunities?

  - Are there “leading” and “lagging” fields?

  - Can funded interventions bring lessons in achieving change within fields?



- Q4. **How can we assess the weaknesses and opportunities in the ecosystem?** [(direct link to notes)](https://docs.google.com/document/d/1igkA6jUfVaDp-0U6Sa8peq8_64URa3-ra41a79bCuEk/edit#heading=h.bw0zvatxjpue)

  - Can project health data (like the CHAOSS project) be integrated to highlight strengths and weaknesses?



- Q5. **Can visibility of interdependencies motivate Industry to provide pro-bono support to those building software crucial to science?** [(direct link to notes)](https://docs.google.com/document/d/1igkA6jUfVaDp-0U6Sa8peq8_64URa3-ra41a79bCuEk/edit#heading=h.ruye2bynnr8g)



- Q6. **What else do you want to do at an ecosystem level that this wouldn’t help with?** [(direct link to notes)](https://docs.google.com/document/d/1igkA6jUfVaDp-0U6Sa8peq8_64URa3-ra41a79bCuEk/edit#heading=h.yj4iiet1rnxp)



---



Got additional questions after the workshop? Email us at `[email protected]` and `[email protected]`



## Recommended reading



At risk of leaving out significant work in this area here are some links to relevant work!



- [CHAOSS project](https://chaoss.community/about/)



- [Depsy](http://depsy.org/). Piwowar, H. A., & Priem, J. (2016). Depsy: Valuing the software that powers science. See Singh Chawla, D. (2016). The unsung heroes of scientific software. Nature News, 529(7584), 115. https://doi.org/10.1038/529115a



- https://libraries.io/experiments



- Bogart, C., Howison, J., & Herbsleb, J. D. (2015). Mapping the Network of Scientific Software. http://james.howison.name/pubs/BogartetAl_ScientificNetworkMapPreprint.pdf



- McConahy, A., Eisenbraun, B., Howison, J., Herbsleb, J. D., & Sliz, P. (2012). Techniques for Monitoring Runtime Architectures of Socio-technical Ecosystems. Workshop on Data-Intensive Collaboration in Science and Engineering (CSCW 2012). http://james.howison.name/pubs/Mcconahy-et-al.pdf



- Nagle, Frank, Jessica Wilkerson, James Dana, and Jennifer L. Hoffman. "Vulnerabilities in the Core: Preliminary Report and Census II of Open Source Software." White Paper, February 2020. https://www.coreinfrastructure.org/programs/census-program-ii/



- Pan, X., Yan, E., & Hua, W. (2016). Disciplinary differences of software use and impact in scientific literature. Scientometrics, 1–18. https://doi.org/10.1007/s11192-016-2138-4



- Kruger, F., & Schindler, D. (2020). A Literature Review on Methods for the Extraction of Usage Statements of Software and Data. Computing in Science & Engineering, 22(1), 26–38. https://doi.org/10.1109/MCSE.2019.2943847



- Ma, Y., Bogart, C., Amreen, S., Zaretzki, R., & Mockus, A. (2019). World of Code: An Infrastructure for Mining the Universe of Open Source VCS Data. 2019 IEEE/ACM 16th International Conference on Mining Software Repositories (MSR), 143–154. https://doi.org/10.1109/MSR.2019.00031



- Katz, D. S. (2014). Transitive Credit as a Means to Address Social and Technological Concerns Stemming from Citation and Attribution of Digital Products. Journal of Open Research Software, 2(1), e20. https://doi.org/10.5334/jors.be



- Allen, A., Teuben, P. J., & Ryan, P. W. (2018). Schroedinger’s Code: A Preliminary Study on Research Source Code Availability and Link Persistence in Astrophysics. The Astrophysical Journal Supplement Series, 236(1), 10. https://doi.org/10.3847/1538-4365/aab764



- Nadia Eghbal. (2016). Roads and Bridges: The Unseen Labor Behind Our Digital Infrastructure. Ford Foundation. https://www.fordfoundation.org/work/learning/research-reports/roads-and-bridges-the-unseen-labor-behind-our-digital-infrastructure/