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update rocker reference
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jashapiro committed Apr 25, 2023
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Expand Up @@ -14,7 +14,7 @@ The contributor formally requested to include their analytical code and results
All PRs underwent peer review to ensure scientific accuracy, maintainability, and readability of code and documentation (**Figure {@fig:Fig1}C-D**).

Beyond peer review, we implemented additional checks to ensure consistent results for all collaborators over time (**Figure {@fig:Fig1}D**).
To provide a consistent software development environment, we created a monolithic image with all OpenPBTA dependencies using Docker® [@https://dl.acm.org/doi/10.5555/2600239.2600241] and the Rocker project [@https://doi.org/10.48550/arXiv.1710.03675].
To provide a consistent software development environment, we created a monolithic image with all OpenPBTA dependencies using Docker® [@https://dl.acm.org/doi/10.5555/2600239.2600241] and the Rocker project [@arxiv:1710.03675].
We used the continuous integration (CI) service CircleCI® to run analytical code in PRs on a test dataset before formal code review, allowing us to detect code bugs or sensitivity to data release changes.

We followed a similar process in our Manubot-powered [@doi:10.1371/journal.pcbi.1007128] repository for proposed manuscript additions (**Figure {@fig:Fig1}C**); peer reviewers ensured clarity and scientific accuracy, and Manubot performed spell-checking.
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