Comments (6)
@rbturnbull I've pushed a first pass of revisions to the paper on the paper-revision
branch. I don't remember where we accessed the generated PDF on GitHub, but if you do, any feedback or further changes from you would be appreciated! I added several citations, though some of the sources (like those from Andrews University Seminary Studies and the Journal of Machine Learning Research) do not appear to have DOIs.
If everything looks good, I'll make a pull request and close this issue.
from teiphy.
Hi @jjmccollum - you can render the paper using the ./paper.sh
script in the base of the repo if you have docker running. Otherwise the CI pipeline for the docs renders and deploys the paper to https://jjmccollum.github.io/teiphy/joss-draft.pdf for every push to the main
branch. Can either of those options work for you?
from teiphy.
Sure! I'll do a pull request to merge paper-revision
with main
so we can check the main paper on the main
branch, but I'll leave this issue open until I have your feedback.
from teiphy.
@rbturnbull Sorry for the additional changes on my end; once I could see the PDF, I made some further commits to fix wording and formatting problems I noticed in it. I'm done with edits, so feel free to take a look when you get a chance!
from teiphy.
Hi @jjmccollum - the revisions look great. I think it might be good to list the other export formats in the summary. I think it's a key feature that it can export to PHYLIP, FASTA etc.
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@rbturnbull Thanks! I've made that update, and you should be able to see it in the paper now. I'll close this issue and have editorialbot validate the paper again.
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Related Issues (20)
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- Add support for `--ascertainment` option HOT 4
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- Relative path to chron file for stemma output HOT 2
- Assignment of random starting rate parameter values, new prior distributions, and support for `--seed` option
- Add support for NEXUS-style CSV/Excel output HOT 1
- Change CSV outputs to include BOM HOT 1
- Use fixed origin for BEAST BDSKY model if tradition has a fixed composition date
- Change AncestralStateLogger to AncestralSequenceLogger in BEAST output
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