MSID: 88024 Version: 3 DOI: 10.1101/2023.05.25.542290

[nlisgo]

MSID: 88024

Version: 3

Preprint DOI: https://doi.org/10.1101/2023.05.25.542290

Step 1. Awaiting reviews

Editorial to post reviews via hypothesis

Useful links:

• DocMap: https://data-hub-api.elifesciences.org/enhanced-preprints/docmaps/v2/by-publisher/elife/get-by-manuscript-id?manuscript_id=88024
• New model tracking: https://docs.google.com/spreadsheets/d/1_fHaoOy7hjyocptKtVJRijeNpUY4hBS7Ck_aVmx6ZJk/
• Reviews on sciety: https://sciety.org/articles/activity/10.1101/2023.05.25.542290

For trouble shooting (e.g. no Docmaps available):

• DocMap issue addressing: https://miro.com/app/board/uXjVNCwK6EI=/
• Explore DataHub DocMaps API: https://lookerstudio.google.com/reporting/4c2f0368-babb-4beb-b5b3-497e7e7b0f08/page/ejphD
• Unmatched submissions and preprints: https://lookerstudio.google.com/u/0/reporting/9f86204f-3bf7-477c-9b18-5c5ef141bf69/page/p_gxi57ha93c
• Unmatched manuscripts spreadsheet: https://docs.google.com/spreadsheets/d/15QcK8w-ssB7109RQEDtFpJPZ0J5HTGxoHa_2TtpMBbg/edit#gid=1336081641

Step 2. Preview reviewed preprint

Production QC content ahead of publication

Instructions:

• QC preview: https://prod--epp.elifesciences.org/previews/88024v3
• Update ticket with any problems (add blocked label)
• When QC OK, add QC OK label to ticket and add publication date and time to https://docs.google.com/spreadsheets/d/1amAlKvdLcaDp5W8Z8g77NmkwbMF5n_u89ArSqPMO8jg
• Move card to next column
• (At end of the day post link in #enhanced-preprint and ask for PDF to be generated)

Useful links:

• Preprint DOI : https://doi.org/10.1101/2023.05.25.542290
• Confirm reviews returned by EPP: https://prod--epp.elifesciences.org/api/reviewed-preprints/88024/v3/reviews
• To update the MECA path in the docmap: https://docs.google.com/spreadsheets/d/1mctCQuNFBjSn97Lihy7_vBO6z7-N-oqyLv4clyi6zHg

Step 3: Awaiting search reindex

This step adds the reviewed preprint to the homepage: https://elifesciences.org

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

Useful links:

• Jenkins pipeline to reindex search can be triggered sooner or monitored here: https://alfred.elifesciences.org/job/process/job/process-reindex-reviewed-preprints/

Step 4: Published! PDF requested

Waiting for PDF to be generated

Useful links:

• PDF tracking: https://docs.google.com/spreadsheets/d/106_XeDjmuBae7gexOTNzg60lapeqjl2aRn9DzupGyS8/

Step 5: Introduce PDF to data folder and git repo

Upload PDF to relevent folder in git repo https://github.com/elifesciences/enhanced-preprints-data/

Step 6: Done!

• [ ] Kettle is on!

[rkcook312]

@fred-atherden figure and figure legends do not to match going by their description e.g fig 1 is a table, table 1 is a figure. bioXriv typesetters appear to have messed up as the PDF order of figures and figure legends is correct but wrong in the full text version.

[fred-atherden]

Well spotted @rkcook312! I've uploaded a corrected package. Should update in the next few hours.

[rkcook312]

Hi @fred-atherden, in preview, image for table 1, figure 4, figure 5 and figure 7 incorrectly match bioRxiv PDF. Figure and table legends are all correctly placed.

[fred-atherden]

Hi @rkcook312, I wonder if it's a caching issue. have you tried hard-refreshing?

Here's what I see in preview for table 1:

Figure 4:

Figure 5:

and so on.

I see that Figure 7 is cached for some reason and won't update (here's the image on iiif which is correct when you add a random parameter on the end: https://prod--epp.elifesciences.org/iiif/2/88024%2Fv3%2Fcontent%2F542290v3_fig7.tif/full/max/0/default.jpg?foo-bar). For this one I will try reloading the package with a changed image name in order to force it to update

[fred-atherden]

Now Figure 8 isn't showing as expected for me (it was previously). I'm going to change the names of all the affected figures and reload, to see if that will solve the issue.

[rkcook312]

Thanks, hard-fresh worked for me, should I go back to this in a few hours?

[fred-atherden]

I don't think there's any need to wait (we don't need to wait for the docmap to update in this one as that already happened yesterday). The images are all looking good to me now. If they also look good to you, let's proceed