Open editorialbot opened 1 month ago
Hello human, I'm @editorialbot, a robot that can help you with some common editorial tasks.
For a list of things I can do to help you, just type:
@editorialbot commands
For example, to regenerate the paper pdf after making changes in the paper's md or bib files, type:
@editorialbot generate pdf
Software report:
github.com/AlDanial/cloc v 1.90 T=0.18 s (377.5 files/s, 67094.1 lines/s)
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Language files blank comment code
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Python 26 1224 2067 4133
Markdown 7 271 0 679
R 7 221 158 520
TeX 2 47 0 520
Jupyter Notebook 2 0 1551 238
YAML 6 34 6 201
TOML 1 8 0 49
Bourne Shell 4 20 3 40
reStructuredText 5 16 37 13
make 1 5 8 10
JSON 7 0 0 7
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SUM: 68 1846 3830 6410
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Commit count by author:
29 Peter Krusche
17 Thibaud Coroller
9 melodiemonod
7 Mélodie Monod
6 corolth1
2 Peter Krusche (Novartis)
1 Ikko Eltociear Ashimine
Paper file info:
📄 Wordcount for paper.md
is 1911
✅ The paper includes a Statement of need
section
License info:
✅ License found: MIT License
(Valid open source OSI approved license)
:warning: An error happened when generating the pdf.
Reference check summary (note 'MISSING' DOIs are suggestions that need verification):
OK DOIs
- 10.1016/s0197-2456(03)00072-2 is OK
- 10.1093/bioinformatics/btr511 is OK
- 10.1111/j.0006-341x.2000.00337.x is OK
- 10.1111/j.0006-341x.2005.030814.x is OK
- 10.1002/bimj.201200045 is OK
- 10.1198/016214507000000149 is OK
- 10.1093/biostatistics/kxy006 is OK
- 10.1002/sim.4154 is OK
- 10.1002/(sici)1097-0258(19960229)15:4<361::aid-sim168>3.0.co;2-4 is OK
- 10.1002/(sici)1097-0258(19990915/30)18:17/18<2529::aid-sim274>3.0.co;2-5 is OK
- 10.1080/01621459.1977.10480613 is OK
- 10.2307/1402659 is OK
MISSING DOIs
- 10.21105/joss.01317 may be a valid DOI for title: lifelines: survival analysis in Python
- No DOI given, and none found for title: Package ‘survival’
- No DOI given, and none found for title: Pytorch: An imperative style, high-performance dee...
- No DOI given, and none found for title: scikit-survival: A Library for Time-to-Event Analy...
- No DOI given, and none found for title: Package ‘survAUC’
- 10.1109/cvpr42600.2020.00975 may be a valid DOI for title: Momentum contrast for unsupervised visual represen...
- 10.1186/s12874-018-0482-1 may be a valid DOI for title: DeepSurv: personalized treatment recommender syste...
- No DOI given, and none found for title: Time-to-Event Prediction with Neural Networks and ...
- No DOI given, and none found for title: auton-survival: An open-source package for regress...
- 10.1007/978-1-4612-4380-9_37 may be a valid DOI for title: Regression Models and Life‐Tables
- No DOI given, and none found for title: The Weibull Distribution
- No DOI given, and none found for title: A Package for Survival Analysis in R
- No DOI given, and none found for title: torchlife: Survival Analysis using pytorch
- No DOI given, and none found for title: Estimators of prediction accuracy for time-to-even...
- No DOI given, and none found for title: Time-Dependent ROC Curve and AUC for Censored Surv...
- No DOI given, and none found for title: Riskset ROC Curve Estimation from Censored Surviva...
- No DOI given, and none found for title: Time-Dependent ROC Curve Estimation from Censored ...
- No DOI given, and none found for title: Risk Regression Models and Prediction Scores for S...
- No DOI given, and none found for title: Predictive Evaluation Metrics in Survival Analysis
- No DOI given, and none found for title: Prediction Error Curves for Risk Prediction Models...
INVALID DOIs
- None
:wave: @melodiemonod - Thanks for your submission to JOSS. While I am getting you set up with a topic editor, please see if you can fix the PDF compile issue flagged in a comment above due to their being an error in your paper or bib file. Also, please reduce the length of your paper to right around 1000 words and try to fix as many of the missing DOI listed above as you can. Thanks!
@editorialbot invite @kanishkan91 as editor
:wave: @kanishkan91 - can you take this one on?
Invitation to edit this submission sent!
@crvernon I can edit this!
@editorialbot assign @kanishkan91 as editor
Assigned! @kanishkan91 is now the editor
@editorialbot commands
Hello @tcoroller, here are the things you can ask me to do:
# List all available commands
@editorialbot commands
# Get a list of all editors's GitHub handles
@editorialbot list editors
# Adds a checklist for the reviewer using this command
@editorialbot generate my checklist
# Set a value for branch
@editorialbot set joss-paper as branch
# Run checks and provide information on the repository and the paper file
@editorialbot check repository
# Check the references of the paper for missing DOIs
@editorialbot check references
# Generates the pdf paper
@editorialbot generate pdf
# Generates a LaTeX preprint file
@editorialbot generate preprint
# Get a link to the complete list of reviewers
@editorialbot list reviewers
@editorialbot check references
Reference check summary (note 'MISSING' DOIs are suggestions that need verification):
OK DOIs
- 10.32614/CRAN.package.survival is OK
- 10.32614/CRAN.package.survAUC is OK
- 10.1109/cvpr42600.2020.00975 is OK
- 10.1186/s12874-018-0482-1 is OK
- 10.1007/978-1-4612-4380-9_37 is OK
- 10.1016/s0197-2456(03)00072-2 is OK
- 10.32614/CRAN.package.survival is OK
- 10.32614/CRAN.package.survAUC is OK
- 10.32614/CRAN.package.timeROC is OK
- 10.32614/CRAN.package.risksetROC is OK
- 10.32614/CRAN.package.survivalROC is OK
- 10.1093/bioinformatics/btr511 is OK
- 10.32614/CRAN.package.riskRegression is OK
- 10.32614/CRAN.package.SurvMetrics is OK
- 10.32614/CRAN.package.pec is OK
- 10.1111/j.0006-341x.2000.00337.x is OK
- 10.1111/j.0006-341x.2005.030814.x is OK
- 10.1002/bimj.201200045 is OK
- 10.1198/016214507000000149 is OK
- 10.1093/biostatistics/kxy006 is OK
- 10.1002/sim.4154 is OK
- 10.1002/(sici)1097-0258(19960229)15:4<361::aid-sim168>3.0.co;2-4 is OK
- 10.1002/(sici)1097-0258(19990915/30)18:17/18<2529::aid-sim274>3.0.co;2-5 is OK
- 10.1080/01621459.1977.10480613 is OK
- 10.2307/1402659 is OK
MISSING DOIs
- No DOI given, and none found for title: scikit-survival: A Library for Time-to-Event Analy...
- No DOI given, and none found for title: Time-to-Event Prediction with Neural Networks and ...
- No DOI given, and none found for title: The Weibull Distribution
- No DOI given, and none found for title: A Package for Survival Analysis in R
INVALID DOIs
- https://doi.org/10.21105/joss.01317 is INVALID because of 'https://doi.org/' prefix
- https://doi.org/10.48550/arXiv.1912.01703 is INVALID because of 'https://doi.org/' prefix
- https://doi.org/10.48550/arXiv.2204.07276 is INVALID because of 'https://doi.org/' prefix
@editorialbot check repository
Software report:
github.com/AlDanial/cloc v 1.90 T=0.18 s (370.1 files/s, 65740.7 lines/s)
-------------------------------------------------------------------------------
Language files blank comment code
-------------------------------------------------------------------------------
Python 26 1224 2067 4133
Markdown 7 263 0 660
TeX 2 47 0 540
R 7 221 158 520
Jupyter Notebook 2 0 1551 238
YAML 6 34 6 201
TOML 1 8 0 49
Bourne Shell 4 20 3 40
reStructuredText 5 16 37 13
make 1 5 8 10
JSON 7 0 0 7
-------------------------------------------------------------------------------
SUM: 68 1838 3830 6411
-------------------------------------------------------------------------------
Commit count by author:
29 Peter Krusche
17 Thibaud Coroller
9 melodiemonod
8 corolth1
7 Mélodie Monod
2 Peter Krusche (Novartis)
1 Ikko Eltociear Ashimine
Paper file info:
📄 Wordcount for paper.md
is 1372
✅ The paper includes a Statement of need
section
License info:
✅ License found: MIT License
(Valid open source OSI approved license)
@editorialbot check references
Reference check summary (note 'MISSING' DOIs are suggestions that need verification):
OK DOIs
- 10.21105/joss.01317 is OK
- 10.32614/CRAN.package.survival is OK
- 10.48550/arXiv.1912.01703 is OK
- 10.5281/zenodo.3352342 is OK
- 10.32614/CRAN.package.survAUC is OK
- 10.1109/cvpr42600.2020.00975 is OK
- 10.1186/s12874-018-0482-1 is OK
- 10.48550/arXiv.2204.07276 is OK
- 10.1007/978-1-4612-4380-9_37 is OK
- 10.1016/s0197-2456(03)00072-2 is OK
- 10.32614/CRAN.package.survival is OK
- 10.32614/CRAN.package.survival is OK
- 10.32614/CRAN.package.survAUC is OK
- 10.32614/CRAN.package.timeROC is OK
- 10.32614/CRAN.package.risksetROC is OK
- 10.32614/CRAN.package.survivalROC is OK
- 10.1093/bioinformatics/btr511 is OK
- 10.32614/CRAN.package.riskRegression is OK
- 10.32614/CRAN.package.SurvMetrics is OK
- 10.32614/CRAN.package.pec is OK
- 10.1111/j.0006-341x.2000.00337.x is OK
- 10.1111/j.0006-341x.2005.030814.x is OK
- 10.1002/bimj.201200045 is OK
- 10.1198/016214507000000149 is OK
- 10.1093/biostatistics/kxy006 is OK
- 10.1002/sim.4154 is OK
- 10.1002/(sici)1097-0258(19960229)15:4<361::aid-sim168>3.0.co;2-4 is OK
- 10.1002/(sici)1097-0258(19990915/30)18:17/18<2529::aid-sim274>3.0.co;2-5 is OK
- 10.1080/01621459.1977.10480613 is OK
- 10.2307/1402659 is OK
MISSING DOIs
- No DOI given, and none found for title: Time-to-Event Prediction with Neural Networks and ...
- No DOI given, and none found for title: The Weibull Distribution
INVALID DOIs
- None
Paper file info:
📄 Wordcount for
paper.md
is 1372✅ The paper includes a
Statement of need
section
Hi @crvernon , thank you for helping us prepare the review. I will take over the process while Melodie is away.
@editorialbot generate pdf
:warning: An error happened when generating the pdf.
@editorialbot generate pdf
:warning: An error happened when generating the pdf.
@editorialbot generate pdf
:point_right::page_facing_up: Download article proof :page_facing_up: View article proof on GitHub :page_facing_up: :point_left:
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⚠️ Note to editors: If these papers look like they might be a good match, click through to the review issue for that paper and invite one or more of the authors before considering asking the reviewers of these papers to review again for JOSS.
Thanks @tcoroller, @kanishkan91 will get you set up with some reviewers soon.
Thanks!
@tcoroller I was away on paternity leave. I'l make sure this review gets started in the next week. My apologies for the delay.
@kanishkan91 welcome back and thank you for the update! I came back myself recently from one, so I fully understand how busy you may be right now. Thanks again
Submitting author: !--author-handle-->@melodiemonod<!--end-author-handle-- (Mélodie Monod) Repository: https://github.com/Novartis/torchsurv Branch with paper.md (empty if default branch): 45-joss-submission Version: v0.1.2 Editor: !--editor-->@kanishkan91<!--end-editor-- Reviewers: Pending Managing EiC: Chris Vernon
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