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elifesciences / enhanced-preprints-import

Enhanced Preprints import system
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MSID: 93246 Version: 1 DOI: 2023.02.22.529531 #1829

Closed nlisgo closed 9 months ago

nlisgo commented 11 months ago

"msas": "Medicine", "Neuroscience" "msid": "93246" "preprintDoi": "10.1101/2023.02.22.529531" "Reviewed Preprint posted": "2023-12-07" "Sent for peer review": "2023-10-12" "Posted to bioRxiv": "2023-10-12" (link: "Go to bioRxiv": "https://www.biorxiv.org/content/10.1101/2023.02.22.529531v4/")

[PLACE PDF URL HERE WHEN AVAILABLE] See step 7

Step 1. Inform bioRxiv

Who can help: @QueenKraken, @nlisgo, @scottaubrey

or (only one should be ticked. remove other from description.)

Send the following email to Ted and wait for his reply.

Hi Ted,

Please can you prepare the preprint MECA for 10.1101/2023.02.22.529531

Thanks

Step 2. Create preview of manuscript

Who can help: @fred-atherden, @nlisgo, @scottaubrey

Pull request: [PLACE LINK TO PULL REQUEST HERE]

Detailed instructions: https://github.com/elifesciences/enhanced-preprints-data#add-a-manuscript

Step 3: Awaiting public reviews and QC

Who can help: Production team

Who can help: Editorial team

Example ``` "msas": "Genetics and Genomics", "Neuroscience" "msid": "84628" "version": "1" "preprintDoi": "10.1101/2022.10.28.514241" "articleType": "Reviewed Preprint" "status": "Published from the original preprint after peer review and assessment by eLife." "Reviewed Preprint posted": "2023-01-02" "Sent for peer review": "2022-10-28" "Posted to bioRxiv": "2022-11-21" (link: "Go to bioRxiv": "https://www.biorxiv.org/content/10.1101/2022.10.28.514241v1") Editors: Reviewing Editor Michael B Eisen University of California, Berkeley, United States Senior Editor Michael B Eisen University of California, Berkeley, United States ```

Step 4: Modify manuscripts.json (no PDF)

Pull request: [PLACE LINK TO PULL REQUEST HERE] #enhanced-preprint comment thread: [PLACE LINK TO COMMENT HERE]

Instructions to modify manuscripts.json - Visit: https://github.com/elifesciences/enhanced-preprints-client/actions/workflows/publish-manuscript.yaml - Click: Run workflow - Complete the form and click "Run workflow" - A successful run should result in a new pull request at https://github.com/elifesciences/enhanced-preprints-client/pulls - Open the pull request and click the "Ready for review" button to trigger tests - Once the tests pass and you are happy with the changes the PR can be merged Example pull request: https://github.com/elifesciences/enhanced-preprints-client/pull/334/files Once the pull request is merged in it should be available a few minutes later.

Request that a doi

Post the following in #enhanced-preprint:

@Fred can you register a doi for https://elifesciences.org/reviewed-preprints/93246

Step 5: Awaiting search reindex

The search reindex is triggered once an hour. We need the reviewed preprint to be indexed as the search application serves the journal homepage.

Additional info If needed, the jenkins pipeline to reindex search can be triggered sooner. https://alfred.elifesciences.org/job/process/job/process-reindex-reviewed-preprints/

Step 6: Published! Request PDF generation

#enhanced-preprint comment thread: [PLACE LINK TO COMMENT HERE]

Post the following to the #enhanced-preprint on slack:

@Ryan Dix-Peek please can you generate a PDF for https://elifesciences.org/reviewed-preprints/93246

Step 7: Introduce PDF to data folder and git repo

Detailed instructions: https://github.com/elifesciences/enhanced-preprints-data#add-a-pdf

Step 8: Add PDF url to manuscripts.json

[PLACE LINK TO PULL REQUEST HERE]

Instructions to add PDF url to manuscripts.json - Visit: https://github.com/elifesciences/enhanced-preprints-client/actions/workflows/add-pdf-url-to-manuscript.yaml - Click: Run workflow - Complete the form and click "Run workflow" - A successful run should result in a new pull request at https://github.com/elifesciences/enhanced-preprints-client/pulls - Open the pull request and click the "Ready for review" button to trigger tests - Once the tests pass and you are happy with the changes the PR can be merged Example pull request: https://github.com/elifesciences/enhanced-preprints-client/pull/397/files Once the pull request is merged in it should be available a few minutes later.

Step 9: Done!

KJT08 commented 11 months ago

Hi @fred-atherden there's no docmap available for this one

fred-atherden commented 11 months ago

Thanks @KJT08. i think I know the reason why. Let's see if this is fixed tomorrow

fred-atherden commented 11 months ago

@hazalCiplak - do you know why there's currently no docmap for this one please:

{"detail":"No Docmaps available for requested manuscript from the publisher eLife"}

It's in the dashboard / report:

Image

But also is present in the spreadsheet:

Image

fred-atherden commented 11 months ago

@HazalCiplak, when you have a chance, please could you take a look at what might be causing the above?

HazalCiplak commented 11 months ago

Hi @fred-atherden, Apologies for the delay; for some reason, I overlooked checking into that matter. I have investigated now and identified the issue as a space character in the long_manuscript_identifier. I have removed it, and I will implement a control in the code to remove the space character for future cases. Thank you for bringing this to my attention. DocMaps will be available soon.

fred-atherden commented 11 months ago

Ah great - many thanks @HazalCiplak!

fred-atherden commented 11 months ago

@HazalCiplak sorry coming back to this I see that there's still no docmap. Could you take a look when you have a chance please?

HazalCiplak commented 11 months ago

DocMaps is now available, thank you for your patience.

fred-atherden commented 11 months ago

nice one - thanks Hazal!