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[PRE REVIEW]: Raphtory: The temporal graph engine for Rust and Python #5633

Closed editorialbot closed 1 year ago

editorialbot commented 1 year ago

Submitting author: !--author-handle-->@narnolddd<!--end-author-handle-- (Naomi Arnold) Repository: https://github.com/Pometry/Raphtory Branch with paper.md (empty if default branch): paper Version: v0.4.2 Editor: !--editor-->@luizirber<!--end-editor-- Reviewers: @abhishektiwari, @arashbm Managing EiC: George K. Thiruvathukal

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Markdown: [![status](https://joss.theoj.org/papers/1fbaaa72bc711cee778c7eca04530286/status.svg)](https://joss.theoj.org/papers/1fbaaa72bc711cee778c7eca04530286)

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Thanks for submitting your paper to JOSS @narnolddd. Currently, there isn't a JOSS editor assigned to your paper.

@narnolddd if you have any suggestions for potential reviewers then please mention them here in this thread (without tagging them with an @). You can search the list of people that have already agreed to review and may be suitable for this submission.

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editorialbot commented 1 year 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
editorialbot commented 1 year ago

Checking the BibTeX entries failed with the following error: 

No paper file path
editorialbot commented 1 year ago 
Software report:

github.com/AlDanial/cloc v 1.88  T=0.16 s (1634.3 files/s, 324393.9 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Rust                           143           4228           4235          25118
JSON                             2              0              0           3808
Python                          18            541            251           1708
YAML                            22             35             19           1063
Jupyter Notebook                11              0           5302            954
Markdown                         7            191              0            513
reStructuredText                22            356            297            337
TOML                            11             57             16            317
CSS                              2             65             11            276
TeX                              1             27              0            245
SVG                              5              0              0            230
JavaScript                       3             11              4             55
make                             2             12              7             29
DOS Batch                        1              8              1             26
Dockerfile                       1             14              0             26
HTML                             3              0              0             23
-------------------------------------------------------------------------------
SUM:                           254           5545          10143          34728
-------------------------------------------------------------------------------

gitinspector failed to run statistical information for the repository
editorialbot commented 1 year ago

Failed to discover a Statement of need section in paper

editorialbot commented 1 year ago

:warning: An error happened when generating the pdf. Paper file not found.

gkthiruvathukal commented 1 year ago

@narnolddd Please correct the above errors so I can proceed with your submission. I will invite an editor, but we need a clean build on the paper to proceed.

gkthiruvathukal commented 1 year ago

@editorialbot invite @luizirber as editor

editorialbot commented 1 year ago

Invitation to edit this submission sent!

gkthiruvathukal commented 1 year ago

@luizirber Just checking whether you saw my invitation to edit.

narnolddd commented 1 year ago

Hi! Apologies I didn't respond to this, been at a conference last week. I'll have a dig into the build bug now, seemed to be working earlier so I will see what has happened.

luizirber commented 1 year ago

@editorialbot commands

editorialbot commented 1 year ago

Hello @luizirber, here are the things you can ask me to do:


# List all available commands
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luizirber commented 1 year ago

@editorialbot assign @luizirber as editor

editorialbot commented 1 year ago

Assigned! @luizirber is now the editor

narnolddd commented 1 year ago

@editorialbot generate pdf

editorialbot commented 1 year ago

:point_right::page_facing_up: Download article proof :page_facing_up: View article proof on GitHub :page_facing_up: :point_left:

narnolddd commented 1 year ago

I think the error should have resolved now, sorry for the delay! Some people I'd like to recommend as reviewers are:

Thanks!

narnolddd commented 1 year ago

Just checking the pdf issue is now resolved @luizirber? Thanks.

narnolddd commented 1 year ago

Hi @luizirber @gkthiruvathukal would it be possible to get an update on this? No worries if it's taking a while to get reviewers etc, just want to know that there's nothing holding up on our end.

narnolddd commented 1 year ago

@luizirber @gkthiruvathukal any update?

gkthiruvathukal commented 1 year ago

@narnolddd just a bit backlogged. I am working through some submissions today and tomorrow.

abhishektiwari commented 1 year ago

@luizirber @gkthiruvathukal I will be open to review this paper.

gkthiruvathukal commented 1 year ago

@luizirber Can you please work on assigning reviewers? Thank you!

luizirber commented 1 year ago

@editorialbot commands

editorialbot commented 1 year ago

Hello @luizirber, here are the things you can ask me to do:


# List all available commands
@editorialbot commands

# Add to this issue's reviewers list
@editorialbot add @username as reviewer

# Remove from this issue's reviewers list
@editorialbot remove @username from reviewers

# Get a list of all editors's GitHub handles
@editorialbot list editors

# Assign a user as the editor of this submission
@editorialbot assign @username as editor

# Remove the editor assigned to this submission
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# Remind an author, a reviewer or the editor to return to a review after a 
# certain period of time (supported units days and weeks)
@editorialbot remind @reviewer in 2 weeks

# Check the references of the paper for missing DOIs
@editorialbot check references

# Perform checks on the repository
@editorialbot check repository

# Adds a checklist for the reviewer using this command
@editorialbot generate my checklist

# Set a value for version
@editorialbot set v1.0.0 as version

# Set a value for branch
@editorialbot set joss-paper as branch

# Set a value for repository
@editorialbot set https://github.com/organization/repo as repository

# Set a value for the archive DOI
@editorialbot set set 10.5281/zenodo.6861996 as archive

# Mention the EiCs for the correct track
@editorialbot ping track-eic

# Generates the pdf paper
@editorialbot generate pdf

# Recommends the submission for acceptance
@editorialbot recommend-accept

# Generates a LaTeX preprint file
@editorialbot generate preprint

# Flag submission with questionable scope
@editorialbot query scope

# Get a link to the complete list of reviewers
@editorialbot list reviewers

# Creates a post-review checklist with editor and authors tasks
@editorialbot create post-review checklist

# Open the review issue
@editorialbot start review
luizirber commented 1 year ago

@editorialbot add @abhishektiwari as reviewer

editorialbot commented 1 year ago

@abhishektiwari added to the reviewers list!

luizirber commented 1 year ago

hi @dinacmistry, would you be interested in review this submission?

luizirber commented 1 year ago

hi @arashbm, would you be interested in reviewing this submission?

arashbm commented 1 year ago

Sounds good. Count me in!

luizirber commented 1 year ago

@editorialbot add @arashbm as reviewer

editorialbot commented 1 year ago

@arashbm added to the reviewers list!

luizirber commented 1 year ago

@editorialbot check references

editorialbot commented 1 year ago 
Reference check summary (note 'MISSING' DOIs are suggestions that need verification):

OK DOIs

- 10.5281/zenodo.8009585 is OK

MISSING DOIs

- 10.1145/1852658.1852661 may be a valid DOI for title: Analysing information flows and key mediators through temporal centrality metrics
- 10.1209/0295-5075/81/48002 may be a valid DOI for title: Burstiness and memory in complex systems
- 10.1103/physrevlett.110.198701 may be a valid DOI for title: Betweenness preference: Quantifying correlations in the topological dynamics of temporal networks
- 10.1016/j.future.2019.08.022 may be a valid DOI for title: Raphtory: Streaming analysis of distributed temporal graphs
- 10.1016/j.softx.2022.101301 may be a valid DOI for title: Reticula: A temporal network and hypergraph analysis software package
- 10.1145/3442442.3452052 may be a valid DOI for title: Analysis and visualisation of time series data on networks with pathpy
- 10.1073/pnas.0903215107 may be a valid DOI for title: Stability of graph communities across time scales
- 10.1038/srep00397 may be a valid DOI for title: Universal features of correlated bursty behaviour
- 10.1214/18-aoas1176 may be a valid DOI for title: Tracking network dynamics: A survey using graph distances
- 10.1073/pnas.0800332105 may be a valid DOI for title: A Poissonian explanation for heavy tails in e-mail communication
- 10.1038/s41567-019-0459-y may be a valid DOI for title: From networks to optimal higher-order models of complex systems
- 10.1145/3479591 may be a valid DOI for title: Moving with the Times: Investigating the Alt-Right Network Gab with Temporal Interaction Graphs
- 10.1101/2021.03.26.437187 may be a valid DOI for title: Inferring cell cycle phases from a partially temporal network of protein interactions

INVALID DOIs

- None
luizirber commented 1 year ago

@editorialbot check repository

editorialbot commented 1 year ago 
Software report:

github.com/AlDanial/cloc v 1.88  T=0.16 s (1618.9 files/s, 321329.7 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Rust                           143           4228           4235          25118
JSON                             2              0              0           3808
Python                          18            541            251           1708
YAML                            22             35             19           1063
Jupyter Notebook                11              0           5302            954
Markdown                         7            191              0            513
reStructuredText                22            356            297            337
TOML                            11             57             16            317
CSS                              2             65             11            276
TeX                              1             27              0            245
SVG                              5              0              0            230
JavaScript                       3             11              4             55
make                             2             12              7             29
DOS Batch                        1              8              1             26
Dockerfile                       1             14              0             26
HTML                             3              0              0             23
-------------------------------------------------------------------------------
SUM:                           254           5545          10143          34728
-------------------------------------------------------------------------------

gitinspector failed to run statistical information for the repository
editorialbot commented 1 year ago

Wordcount for paper.md is 1308

luizirber commented 1 year ago

@narnolddd can you please check https://github.com/openjournals/joss-reviews/issues/5633#issuecomment-1727836515 for suggestions for DOIs for the references, and add the corrected ones to https://github.com/Pometry/Raphtory/blob/paper/paper/joss-raphtory.bib ? Thanks!

narnolddd commented 1 year ago

Sorry for my late reply @luizirber -- of course, I will get on that now! Thanks.

narnolddd commented 1 year ago

@editorialbot generate pdf

editorialbot commented 1 year ago

:point_right::page_facing_up: Download article proof :page_facing_up: View article proof on GitHub :page_facing_up: :point_left:

narnolddd commented 1 year ago

@editorialbot check references

editorialbot commented 1 year ago 
Reference check summary (note 'MISSING' DOIs are suggestions that need verification):

OK DOIs

- 10.1137/19M1242252 is OK
- 10.1145/1852658.1852661 is OK
- 10.1209/0295-5075/81/48002 is OK
- 10.1103/physrevlett.110.198701 is OK
- 10.1016/j.future.2019.08.022 is OK
- 10.1016/j.softx.2022.101301 is OK
- 10.1145/3442442.3452052 is OK
- 10.5281/zenodo.7682609 is OK
- 10.6084/m9.figshare.1164194.v14 is OK
- 10.1103/PhysRevE.85.056115 is OK
- 10.1073/pnas.0903215107 is OK
- 10.1063/1.2711640 is OK
- 10.1145/3159652.3159706 is OK
- 10.1038/srep00397 is OK
- 10.1214/18-aoas1176 is OK
- 10.1073/pnas.0800332105 is OK
- 10.1038/s41567-019-0459-y is OK
- 10.1093/oso/9780198805090.001.0001 is OK
- 10.1007/978-3-642-36461-7 is OK
- 10.1142/q0033 is OK
- 10.1145/3479591 is OK
- 10.1145/3018661.3018731 is OK
- 10.1145/3093742.3093913 is OK
- 10.5281/zenodo.8009585 is OK
- 10.1101/2021.03.26.437187 is OK

MISSING DOIs

- None

INVALID DOIs

- None
narnolddd commented 1 year ago

@luizirber just to confirm, the DOIs seem to be okay now.

luizirber commented 1 year ago

Thanks @narnolddd, we are ready to go!

luizirber commented 1 year ago

@editorialbot start review

editorialbot commented 1 year ago

OK, I've started the review over in https://github.com/openjournals/joss-reviews/issues/5940.