[REVIEW]: Testing the new submission system

roboneuro commented 1 year ago

Submitting author: !--author-handle-->@agahkarakuzu@pbellec@mathieuboudreau<!--end-reviewers-list-- Reproducible preprint: Pending Repository archive: Pending Data archive: Pending Book archive: Pending Docker archive: Pending

Status

Status badge code:

HTML: <a href="https://neurolibre.org/papers/b17407d40bbb47b3c42fdde8bc08ff00"><img src="https://neurolibre.org/papers/b17407d40bbb47b3c42fdde8bc08ff00/status.svg"></a>
Markdown: [![status](https://neurolibre.org/papers/b17407d40bbb47b3c42fdde8bc08ff00/status.svg)](https://neurolibre.org/papers/b17407d40bbb47b3c42fdde8bc08ff00)

Reviewers and authors:

Please avoid lengthy details of difficulties in the review thread. Instead, please create a new issue in the target repository and link to those issues (especially acceptance-blockers) by leaving comments in the review thread below. (For completists: if the target issue tracker is also on GitHub, linking the review thread in the issue or vice versa will create corresponding breadcrumb trails in the link target.)

Reviewer instructions & questions

@mathieuboudreau, your review will be checklist based. Each of you will have a separate checklist that you should update when carrying out your review. First of all you need to run this command in a separate comment to create the checklist:

@roboneuro generate my checklist

The reviewer guidelines are available here: https://joss.readthedocs.io/en/latest/reviewer_guidelines.html. Any questions/concerns please let @pbellec know.

✨ Please start on your review when you are able, and be sure to complete your review in the next six weeks, at the very latest ✨

Checklists

@mathieuboudreau, please create your checklist typing: @roboneuro generate my checklist

agahkarakuzu commented 1 year ago

@roboneuro production sync data

agahkarakuzu commented 1 year ago

@roboneuro production sync data

roboneuro commented 1 year ago

⠀⠀ DATA TRANSFER (Preview --> Preprint) 🔴 Status: Failed 0652638a ⠀⠀ Last updated: 2023-05-12 09:58:23 PDT ⠀⠀ b''

agahkarakuzu commented 1 year ago

@roboneuro production sync data

roboneuro commented 1 year ago

⠀⠀ DATA TRANSFER (Preview --> Preprint) 🔴 Status: Failed 23b1df6f ⠀⠀ Last updated: 2023-05-12 10:07:47 PDT ⠀⠀ b''

agahkarakuzu commented 1 year ago

@roboneuro production sync data

roboneuro commented 1 year ago

⠀⠀ DATA TRANSFER (Preview --> Preprint) 🔴 Status: Failed 95256cc8 ⠀⠀ Last updated: 2023-05-12 10:15:45 PDT ⠀⠀ Directory does not exist: agah_template

agahkarakuzu commented 1 year ago

@roboneuro production sync data

roboneuro commented 1 year ago

⠀⠀ DATA TRANSFER (Preview --> Preprint) 🟢 Status: Successful! b25dc5cb ⠀⠀ Last updated: 2023-05-12 10:31:55 PDT

agahkarakuzu commented 1 year ago

@roboneuro production sync data

roboneuro commented 1 year ago

⠀⠀ DATA TRANSFER (Preview --> Preprint) 🟢 Status: Successful! 401fc548 ⠀⠀ Last updated: 2023-05-12 10:55:41 PDT ⠀⠀

agahkarakuzu commented 1 year ago

@roboneuro production sync data

roboneuro commented 1 year ago

⠀⠀ DATA TRANSFER (Preview --> Preprint) 🟢 Status: Successful! b59bb542 ⠀⠀ Last updated: 2023-05-12 11:01:41 PDT ⠀⠀

agahkarakuzu commented 1 year ago

@roboneuro production sync data

roboneuro commented 1 year ago

🟢 DATA TRANSFER (Preview --> Preprint)

Status: Success 637739da Last updated: 2023-05-12 11:14:32 PDT

:information_source: See details

b'receiving incremental file list\nDATA/\nDATA/agah_template/\nDATA/agah_template/data_requirement.json\nDATA/agah_template/repo2data.log\nDATA/agah_template/development_fmri/\nDATA/agah_template/development_fmri/development_fmri/\nDATA/agah_template/development_fmri/development_fmri/participants.tsv\nDATA/agah_template/development_fmri/development_fmri/sub-pixar123_task-pixar_desc-confounds_regressors.tsv\nDATA/agah_template/development_fmri/development_fmri/sub-pixar123_task-pixar_desc-reducedConfounds_regressors.tsv\nDATA/agah_template/development_fmri/development_fmri/sub-pixar123_task-pixar_space-MNI152NLin2009cAsym_desc-preproc_bold.nii.gz\n\nsent 162 bytes  received 5,793,773 bytes  891,374.62 bytes/sec\ntotal size is 5,791,609  speedup is 1.00\n'

agahkarakuzu commented 1 year ago

@roboneuro commands

roboneuro commented 1 year ago

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


# List all available commands
@roboneuro commands

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

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

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

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

# Remove the editor assigned to this submission
@roboneuro remove editor

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

# Check the references of the PDF for missing DOIs
@roboneuro check references

# Perform checks on the repository
@roboneuro check repository

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

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

# Set a value for branch
@roboneuro set neurolibre-paper as branch

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

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

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

# Reject paper
@roboneuro reject

# Withdraw paper
@roboneuro withdraw

# Invite an editor to edit a submission (sending them an email)
@roboneuro invite @(.*) as editor

# Generates the pdf paper
@roboneuro generate pdf

# Recommends the submission for acceptance
@roboneuro recommend-accept

# Accept and publish the paper
@roboneuro accept

# Update data on an accepted/published paper
@roboneuro reaccept

# Generates a LaTeX preprint file
@roboneuro generate preprint

# Flag submission with questionable scope
@roboneuro query scope

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

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

# Open the review issue
@roboneuro start review

# Check the status of the NeuroLibre preview server.
@roboneuro preview server status

# Check the status of the NeuroLibre preprint (production) server.
@roboneuro preprint server status

# Build a NeuroLibre reproducible preprint for technical screening.
@roboneuro build book

# Transfer data from preview to the preprint (production) server.
@roboneuro production sync data

# Transfer the final preprint (forked repo) to the preprint (production) server (DOI URL).
@roboneuro production sync book

agahkarakuzu commented 1 year ago

@roboneuro production sync book

roboneuro commented 1 year ago

:eyes: Looks like the reproducible preprint you requested has been already built:

[{"time_added":"2023-05-05 00:48:21 +0000","book_url":"https://preview.neurolibre.org/book-artifacts/agahkarakuzu/github.com/template/9531917b3ceb7cfeb779a4a4b4a4a33fe4e71ad0/_build/html/","download_url":null}]

agahkarakuzu commented 1 year ago

@roboneuro production sync book

agahkarakuzu commented 1 year ago

@roboneuro production sync book

roboneuro commented 1 year ago

⚪ REPRODUCIBLE PREPRINT TRANSFER (Preview --> Preprint)

Status: Assigned to task 43f434a2 Last updated: 2023-05-12 12:29:09 PDT

agahkarakuzu commented 1 year ago

@roboneuro production sync book

agahkarakuzu commented 1 year ago

@roboneuro production sync book

roboneuro commented 1 year ago

🟠 REPRODUCIBLE PREPRINT TRANSFER (Preview --> Preprint)

Status: In progress cae139a8 Last updated: 2023-05-12 12:41:31 PDT

agahkarakuzu commented 1 year ago

@roboneuro production sync book

roboneuro commented 1 year ago

🟠 REPRODUCIBLE PREPRINT TRANSFER (Preview --> Preprint)

Status: In progress c260089c Last updated: 2023-05-12 12:48:02 PDT

agahkarakuzu commented 1 year ago

@roboneuro production sync book

roboneuro commented 1 year ago

🔴 REPRODUCIBLE PREPRINT TRANSFER (Preview --> Preprint)

Status: Failed d4db695b Last updated: 2023-05-12 12:51:35 PDT

:information_source: See details

b'receiving incremental file list\n\nsent 140 bytes  received 7,407 bytes  3,018.80 bytes/sec\ntotal size is 55,319,631  speedup is 7,330.02\n'

agahkarakuzu commented 1 year ago

@roboneuro production sync book

roboneuro commented 1 year ago

🔴 REPRODUCIBLE PREPRINT TRANSFER (Preview --> Preprint)

Status: Failed b9377f49 Last updated: 2023-05-12 13:06:51 PDT

:information_source: See details

b'receiving incremental file list\n\nsent 140 bytes  received 7,407 bytes  3,018.80 bytes/sec\ntotal size is 55,319,631  speedup is 7,330.02\n'

agahkarakuzu commented 1 year ago

@roboneuro production sync book

roboneuro commented 1 year ago

🟢 REPRODUCIBLE PREPRINT TRANSFER (Preview --> Preprint)

Status: Success d07f7372 Last updated: 2023-05-12 13:16:23 PDT

:information_source: See details

Reproducible Preprint URL (DOI formatted)Reproducible Preprint (bare URL)

agahkarakuzu commented 1 year ago

@roboneuro production sync book

roboneuro commented 1 year ago

🟢 REPRODUCIBLE PREPRINT TRANSFER (Preview --> Preprint)

Status: Success 169ff225 Last updated: 2023-05-12 13:21:01 PDT

:information_source: See details

Reproducible Preprint URL (DOI formatted)Reproducible Preprint (bare URL)

agahkarakuzu commented 1 year ago

@roboneuro production sync book

agahkarakuzu commented 1 year ago

@roboneuro production sync book

agahkarakuzu commented 1 year ago

@roboneuro production sync book

agahkarakuzu commented 1 year ago

@roboneuro production sync book

roboneuro commented 1 year ago

Jupyter Book build log

['fsjdhfn s\n', 'dfmknsjd fnksd fnksdf \n', 'sdkfhbskd f\n', 'sd fkbjsdn fksdf\n', 'sdfnjk sdf \n', 'sdf mnskdjf sdfs']

Execution error log for anan notebook (anan.ipynb) or MyST (anan.md)).

['irueityowpqr\n', 'oitreyuwoty\n', 'tuerioituyr\n', 'tiyeruowtie\n', 'ietrwiut']

🐞 After inspecting the logs above, you can interactively debug your notebooks on our BinderHub server.

For guidelines, please see the relevant documentation.

roboneuro commented 1 year ago

Jupyter Book build log

['fsjdhfn s\n', 'dfmknsjd fnksd fnksdf \n', 'sdkfhbskd f\n', 'sd fkbjsdn fksdf\n', 'sdfnjk sdf \n', 'sdf mnskdjf sdfs']

Execution error log for anan notebook (anan.ipynb) or MyST (anan.md)).

['irueityowpqr\n', 'oitreyuwoty\n', 'tuerioituyr\n', 'tiyeruowtie\n', 'ietrwiut']

🐞 After inspecting the logs above, you can interactively debug your notebooks on our BinderHub server.

For guidelines, please see the relevant documentation.

roboneuro commented 1 year ago

Jupyter Book build log

['fsjdhfn s\n', 'dfmknsjd fnksd fnksdf \n', 'sdkfhbskd f\n', 'sd fkbjsdn fksdf\n', 'sdfnjk sdf \n', 'sdf mnskdjf sdfs']

Execution error log for anan notebook (anan.ipynb) or MyST (anan.md)).

['irueityowpqr\n', 'oitreyuwoty\n', 'tuerioituyr\n', 'tiyeruowtie\n', 'ietrwiut']

🐞 After inspecting the logs above, you can interactively debug your notebooks on our BinderHub server.

For guidelines, please see the relevant documentation.

roboneuro commented 1 year ago

Jupyter Book build log

fsjdhfn s

dfmknsjd fnksd fnksdf 

sdkfhbskd f

sd fkbjsdn fksdf

sdfnjk sdf 

sdf mnskdjf sdfs

Execution error log for anan notebook (anan.ipynb) or MyST (anan.md)).

irueityowpqr

oitreyuwoty

tuerioituyr

tiyeruowtie

ietrwiut

🐞 After inspecting the logs above, you can interactively debug your notebooks on our BinderHub server.

For guidelines, please see the relevant documentation.

roboneuro commented 1 year ago

Jupyter Book build log

fsjdhfn s
dfmknsjd fnksd fnksdf
sdkfhbskd f
sd fkbjsdn fksdf
sdfnjk sdf
sdf mnskdjf sdfs

Execution error log for anan notebook (anan.ipynb) or MyST (anan.md)).

irueityowpqr
oitreyuwoty
tuerioituyr
tiyeruowtie
ietrwiut

🐞 After inspecting the logs above, you can interactively debug your notebooks on our BinderHub server.

For guidelines, please see the relevant documentation.

neurolibre / neurolibre-reviews-testing