KGL PubFactory

Elevate Your Platform

Mike Groth

PubFactory Updates – December 2023

This Spotlight covers the most interesting new features made in 2023 R4 and R5. For more detailed information, see the release notes and platform documentation.

​New Platform Features

​New Platform Improvements

​Management Portal Updates

New Platform Features

Article Type Search Filter

An article type filter has been added.  This is driven by the article type attribute in a JATS document. This will appear as one of the possible search filters in the Management Portal.  Drag it over to the enabled filters section to have it appear on the front-end of the site.

Embargo Support for BITS chapters

This update adds support for embargo dates for BITS book chapters. To support this, we have added ingestion for <date date-type=”embargo”> tagging. We have also added support for removing the embargo from the displayed TOC, and support for turning off all embargo functionality if the site is not in production mode. If the site is not in production mode, embargoed items display, but their titles are prefixed with “[EMBARGOED]” to indicate that they will not be visible on the live site.

Example source:

<pub-history>
<date date-type=”embargo” iso-8601-date=”2034-12-07″></date>
</pub-history>

Display on staging:

TOC Display of Chapter
Chapter Title display on chapter page

On the live site, the ToC display would be suppressed and the chunk itself would not display.

Support for new video streaming service: Bunny

We now support the Bunny video hosting service.  This support includes displaying the video in a similar manner to Wistia videos (inside a figure on content rendered with nlmcommon.xsl).  Caption, transcript (via the long-description tag), and aria-label (via alt-text) are all supported.

Support for TDM Reservation Protocol (TDMRep)

This enhancement implements support for the Text & Data Mining Reservation Protocol.  There is a new setting in the Management Portal for setting this. It suports 3 values:

  • unset,
  • 0 and
  • 1.

If no option was selected or unset was selected, requests to the URL return an HTTP 404 response. If set to 0 (TDM rights not reserved) or 1 (TDM rights reserved) the selected value will be used as the value of the tdm-reservation JSON property.

New Platform Improvements

Accessibility Improvement: fix HTML Anchors

This enhancement updates the Jump to content link to be more consistent and usable for users who navigate pages with a keyboard. It updates the jumpToContent link so it appears at the very top of every page and to skip repetitive navigation, “skip-to-navigation” will be removed. This is achieved by updating box component in configurable layouts to have the following property:

Enabling the option adds a “mainContent” id and “main” role to the box component in question and this is what the Jump to content link will use for anchor. The jumpToContent link also has an aria-label now which is tied to layout.jump-to-content-link.aria-label region with the default value of Skip to main content.

 

Author Affiliations are now Searchable

This enhancement introduces author affiliations as searchable elements. In quick search, it’s automatically included in the list of fields in the query. In advanced search, there’s an extra option to search specifically for affiliations.

Ability to select access icons and their size

The design settings in the Management Portal now offer choices for access icon size and which icon should represent which level of access.  If no options are selected, the site will default to the current icon selection and size (except for a 2px increase in size on the search page, which should make its size consistent with the index card).

Management Portal UI
Example of display on the front-end
Lock AppBar on Scroll

Previously, when the user is scrolling the page, the AppBar will come back into view when the user scrolls up. The platform now can set a configuration to make the AppBar locked (i.e. it scrolls normally with the rest of the page). This configuration is in the Features section of the SiteGen site configurations.

 

Keywords can now be shown in all languages

If keywords in different languages are provided in the content, the publisher now has the option to render the keywords in the application.

Example:

<ifp:keywords>
<ifp:keyword encoding-type=”nlm”  xml:lang=”hu”>generativitás</ifp:keyword>
<ifp:keyword encoding-type=”nlm” xml:lang=”hu”>Loyola Generativitás Skála</ifp:keyword> <ifp:keyword encoding-type=”nlm” xml:lang=”hu”>validáció</ifp:keyword>
<ifp:keyword encoding-type=”nlm” xml:lang=”en”>generativity</ifp:keyword>
<ifp:keyword encoding-type=”nlm” xml:lang=”en”>Loyola Generativity Scale</ifp:keyword> <ifp:keyword encoding-type=”nlm” xml:lang=”en”>validity</ifp:keyword> </ifp:keywords>

The Metadata block settings have been supplemented to include, besides the usual “Keywords” option, there is now a “Keywords: [@xml:lang]” for every //ifp:keyword/@xml:lang value in the whole Solr database. The label to be used in the webapp for these option will be article.metadata.keywords-[xx].label, where xx is a 2-letter language code.

PDF Watermark updated for Open Access content

When the PDF being downloaded is content with at least one currently valid open access license, a few changes were done in the watermark:

  • Replace  “via [Institution Name]” with “via Open Access. [license description from <ifp:license>”.
  • If //ifp:license[@url] is present and not blank add a clickable link to the URL.

Support marking books as not for sale

Previously, we used the presence of a print ISBN on a loaded Book as the sole indicator of whether to generate the “Buy Book in Print” button.  We can now support marking books as not for sale.

This is currently enabled for BITS Books by adding a custom-meta element with child meta-name element “ifp:print-isbn-not-for-sale” under book-meta to the source XML e.g.

<book-meta>
…
<custom-meta-group>
<custom-meta>
<meta-name>ifp:print-isbn-not-for-sale</meta-name>
<meta-value>true</meta-value>
</custom-meta>
</custom-meta-group>
</book-meta>

Management Portal Updates

Add Online Publication Date as a filter for content sets

On the search page, this enhancement renames the Publish Year filter to Sort Year, and adds a new Online Publication Date filter based on <ifp:date @type=’published-online’>. 

This gives more accurate answers for the first online publication date for content and handles the case of content published AOP in one year but folioed the following year (whereas sort date updates to the publication date of the issue).

ContentDepositService – Aka PubMed deposit logs

There is now a service that keeps track of the current status of PubMed deposits.

Quick links to access other Spotlight articles

The View from the Hidden Corner – August 2023

by Tom Beyer

JNS ChatGPT Experiment

The Journal of Neurosurgery (JNS), a stalwart PubFactory client of many years, is running an interesting experiment right now.  We have helped them create a UI to allow users to use a special version of ChatGPT to query aspects of an article.  Information about the experiment can be found here:

When words leap off the page: conversational manuscripts as a novel interface for scientific publishing

The manuscript itself can be found here:

Conversational Manuscript

And a FAQ about the experiment can be found here:

Chat FAQ

It’s exciting for PubFactory to be used for such a forward looking technological integration.  Come to the Virtual Series if  you want to hear more.

LLM / ChatGPT Links of interest

I’ve also compiled a few interesting links about LLMs & ChatGPT that further delve into the wild and wacky world that is rapidly evolving around us.  This time feels like the late 90’s in that things are changing fast and clearly there are going to be some big consequences but no one really knows how it’s going to shake out. 

Large language models, explained with a minimum of math and jargon

One of the best explainer articles that I’ve found.  Essentially LLM’s work by converting words to number vectors in a very high dimensional virtual space.  This clusters like words and concepts in interesting ways (you can do vector math on them) and seemingly when the vectors and spaces get large enough new capabilities start emerging – and no one knows exactly what, how or why. 

Catching up on the weird world of LLMs

This  is an eye opening account of things you can do with LLM’s from someone who is busy experimenting with them.  It seems we are only scratching the surface of what attaching these systems to other things will bring.  There’s also a scary section at the end about how things can go very wrong.  New favorite metaphor – this is alien tech and we’re just poking at it with a stick to see what happens. 🤯

The Lone Banana Problem.
Or, the new programming: “speaking” AI

I like this article because generative image systems (which use the same underlying technology as LLM’s) showcase in an easier to understand way some of the subtle biases and blind spots that these systems can have.

OpenAI scuttles AI-written text detector over ‘low rate of accuracy’

No, we don’t know how to detect AI written text yet…

SSP Sponsored Session

KGL has been growing so quickly that it is hard (even for us) to keep up with all the things we can do.  Our sponsored session at SSP tried to cover some of this and includes an interesting case study from AAA:

Contact your project manager if you would like to explore some of the other capabilities KGL offers.

PubFactory Updates – August 2023

This Spotlight covers the most interesting new features made in 2023 R2 and R3.  For more detailed information, see the release notes and platform documentation.

​New Platform Features

​New Platform Improvements

​Management Portal Updates

New Platform Features

ShareThis Replacement of AddThis

Layout engine widget changes:

  1. The following widgets are  now functional again but will use ShareThis instead of AddThis internally:
    • Share Button
    • Share on Facebook Button
    • Share on Twitter Button
  2. The following widget no longer displays on the front end::
    • Share on Mendeley Button
  3. The following widget has been added:
    • Share on LinkedIn Button
  4. A new color option (“Service”), which changes the background of the button based on the brand color of the social media network it represents, has been added for the following buttons:
    • Share on Facebook Button
    • Share on LinkedIn Button
    • Share on Twitter Button

Front end changes:

  1. Layouts that still have the Share Button, Share on Facebook Button, and/or Share on Twitter Button on them should see these buttons reappear regardless of whether or not the AddThis-share config is enabled.
  2. Clicking the share button no longer opens a modal with share options.
  3. The display of the share button’s popover menu has changed, and it has a reduced number of options:
Share Button on client with square button corners
Share Button on client with rounded button corners

Selecting the “Service” color option for the Share on Facebook Button, Share on LinkedIn Button, or Share On Twitter Button changes the background color based on the social media network:

TEI Additions

We’ve been working to expand the platform to fully support TEI as a content type. 

New Platform Improvements

Cadmore Video Improvements

We have changed from using custom PubFactory CSS to render the Cadmore player. Instead, we now use Cadmore’s “We Size Responsive” option.  This should improve the player display at different page sizes.  This also means that most display-related bugs that come in regarding Cadmore should be expected to go to Cadmore.

Our Cadmore video service now supports supplying either the full Cadmore URL or just the video DOI as we did before.

OpenURL queries retaining non-OpenURL query parameters

When an OpenURL query is made, now all non-OpenURL query parameters and their values are included by the OpenURL handler in the URL it redirects to when it finds a single search result. For example:

https://imfsg-dev.pubfactory.com/openurl?genre=book&isbn=9798400219672&cid=lk-com-dsp-ebsco&something=else

redirects to:

https://imfsg-dev.pubfactory.com/display/book/9798400219672/9798400219672.xml?cid=lk-com-dsp-ebsco&something=else.

This allows tracking codes to be used in conjunction with the inbound OpenURL handler in the platform.  In other words, marketing emails can use the openURL style links to the platform and include tracking codes as part of the link.  Since the codes are not being stripped off anymore they can be filtered in Google Analytics to report on marketing efforts.

Update Information Included in CrossMark XML

The update information for Crossmark is now included in the data we send. The data is sent if there is an ifp:related tag with a role of corrected-article or retracted-article.  This lets platforms that also include these articles know that there have been corrections or retractions.

More information on our Crossmark functionality is at

PF 93.x Technical Release Notes and on the related-article functionality at

PF 97.x Technical Release Notes.

Handle license dates when searching for accessible content

Our accessible content searches weren’t handling the start and end dates of ingested licenses, because the search was just searching for license=”free” and the like. The accessible filter now pays attention to license start and end dates to ensure that accessible content is, in fact, accessible.

PDF download naming convention to use the journal acronym instead of the ISSN

PDF downloads have a new naming convention where the following format will be used

[journal-id]-[xml-filename].pdf

If journal id is not available it will fall back to the old convention and use ISSN instead of journal id.

This change creates more compact URLs.  Certain systems were having trouble with the length of some PDF filenames.

Improvements for phrase searches on author names

There were certain cases when a  “Firstname Lastname” query would not return the author.  This depended on an interaction between the way the data was encoded in the XML and how the data was ingested into the platform.  The internal representation of the author name data has been improved to ensure that phrase searches for “Firstname Lastname” will always work.

Additional Region for Email Templates

To better support the MARC record email alert, a new region has been added: ${AvailableSinceDate}.  It can be used in a sentence such as the following:

There are now ${marcRecordCount} new and/or updated MARC records since ${availableSinceDate} for…

Management Portal Updates

Changes to how images and other files are stored in SOLR

We have created a /.artifact directory for our SOLR repositories to store images and other files.  This declutters the main content directories and fixes some issues with image support for content without PDFs.

ContentDepositService – Aka PubMed deposit logs

There is now a service that keeps track of the current status of PubMed deposits.

Quick links to access other Spotlight articles

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