commonmeta-ruby 3.3.16 → 3.3.18

checksums.yaml

@@ -1,7 +1,7 @@
 ---
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-  data.tar.gz: 190a4ddc0e6789c56f6f9a5a97355c8684e103abf121d2dfefdd5c1d816bd2d2
+  metadata.gz: 1c4fb0fccfd81d27f198f9cb4f4d56dace1a0ea509f9dfa48603e6b09d5058cf
+  data.tar.gz: d50b7df6d786722b3d86a61da19c1c3083cf2df55c46d9b70393d67532802e43
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-  data.tar.gz: 56b4e03114cff5155c502f08f953afb3f2ba13c82bdefecfed73b752131b6b718cd21460eaa8d6506b7b50ded9655330e7c040c833a81c5feeb105c489306ab9
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+  data.tar.gz: 9af2e1d27abdc064550b95ce544394c72cf319dde10f1e2e33001ee6d61ba57d4554573772059c78a36e7235efd894549225f5090f8e11dcb8e31299701966f0

data/Gemfile.lock

@@ -1,7 +1,7 @@
 PATH
   remote: .
   specs:
-    commonmeta-ruby (3.3.16)
+    commonmeta-ruby (3.3.18)
       activesupport (>= 4.2.5, < 8.0)
       addressable (~> 2.8.1, < 2.8.2)
       base32-url (>= 0.7.0, < 1)
@@ -60,7 +60,7 @@ GEM
     docile (1.4.0)
     domain_name (0.5.20190701)
       unf (>= 0.0.5, < 1.0.0)
-    ebnf (2.3.4)
+    ebnf (2.3.5)
       htmlentities (~> 4.3)
       rdf (~> 3.2)
       scanf (~> 1.0)
@@ -76,9 +76,6 @@ GEM
       ffi (>= 1.0.0)
       rake
     gender_detector (2.0.0)
-    haml (5.2.2)
-      temple (>= 0.8.0)
-      tilt
     hana (1.3.7)
     hashdiff (1.0.1)
     htmlentities (4.3.4)
@@ -124,13 +121,13 @@ GEM
       crass (~> 1.0.2)
       nokogiri (>= 1.12.0)
     matrix (0.4.2)
-    minitest (5.18.1)
+    minitest (5.19.0)
     multi_json (1.15.0)
     namae (1.1.1)
     nokogiri (1.15.3-arm64-darwin)
       racc (~> 1.4)
-    oj (3.15.0)
-    optimist (3.0.1)
+    oj (3.15.1)
+    optimist (3.1.0)
     parallel (1.23.0)
     parser (3.2.2.3)
       ast (~> 2.4.1)
@@ -150,31 +147,19 @@ GEM
     rake (13.0.6)
     rdf (3.2.11)
       link_header (~> 0.0, >= 0.0.8)
-    rdf-aggregate-repo (3.2.1)
-      rdf (~> 3.2)
-    rdf-rdfa (3.2.2)
-      haml (>= 5.2, < 7)
-      htmlentities (~> 4.3)
-      rdf (~> 3.2)
-      rdf-aggregate-repo (~> 3.2)
-      rdf-vocab (~> 3.2)
-      rdf-xsd (~> 3.2)
-    rdf-rdfxml (3.2.1)
-      haml (~> 5.2)
+    rdf-rdfxml (3.2.2)
+      builder (~> 3.2)
       htmlentities (~> 4.3)
       rdf (~> 3.2)
-      rdf-rdfa (~> 3.2)
       rdf-xsd (~> 3.2)
     rdf-turtle (3.2.1)
       ebnf (~> 2.3)
       rdf (~> 3.2)
-    rdf-vocab (3.2.6)
-      rdf (~> 3.2, >= 3.2.4)
     rdf-xsd (3.2.1)
       rdf (~> 3.2)
       rexml (~> 3.2)
     regexp_parser (2.8.1)
-    rexml (3.2.5)
+    rexml (3.2.6)
     rspec (3.12.0)
       rspec-core (~> 3.12.0)
       rspec-expectations (~> 3.12.0)
@@ -184,14 +169,14 @@ GEM
     rspec-expectations (3.12.3)
       diff-lcs (>= 1.2.0, < 2.0)
       rspec-support (~> 3.12.0)
-    rspec-mocks (3.12.5)
+    rspec-mocks (3.12.6)
       diff-lcs (>= 1.2.0, < 2.0)
       rspec-support (~> 3.12.0)
     rspec-support (3.12.1)
     rspec-xsd (0.1.0)
       nokogiri (~> 1.6)
       rspec (~> 3)
-    rubocop (1.54.1)
+    rubocop (1.55.1)
       json (~> 2.3)
       language_server-protocol (>= 3.17.0)
       parallel (~> 1.10)
@@ -199,7 +184,7 @@ GEM
       rainbow (>= 2.2.2, < 4.0)
       regexp_parser (>= 1.8, < 3.0)
       rexml (>= 3.2.5, < 4.0)
-      rubocop-ast (>= 1.28.0, < 2.0)
+      rubocop-ast (>= 1.28.1, < 2.0)
       ruby-progressbar (~> 1.7)
       unicode-display_width (>= 2.4.0, < 3.0)
     rubocop-ast (1.29.0)
@@ -213,7 +198,7 @@ GEM
       rubocop-ast (>= 0.4.0)
     rubocop-rake (0.6.0)
       rubocop (~> 1.0)
-    rubocop-rspec (2.22.0)
+    rubocop-rspec (2.23.0)
       rubocop (~> 1.33)
       rubocop-capybara (~> 2.17)
       rubocop-factory_bot (~> 2.22)
@@ -231,14 +216,12 @@ GEM
     sxp (1.2.4)
       matrix (~> 0.4)
       rdf (~> 3.2)
-    temple (0.10.2)
     textutils (1.4.0)
       activesupport
       logutils (>= 0.6.1)
       props (>= 1.1.2)
       rubyzip (>= 1.0.0)
     thor (1.2.2)
-    tilt (2.2.0)
     tzinfo (2.0.6)
       concurrent-ruby (~> 1.0)
     unf (0.1.4)

data/bin/commonmeta

@@ -2,7 +2,7 @@
 
 require File.expand_path("../../lib/commonmeta", __FILE__)
 
-if (ARGV & %w(--version -v help --help encode decode encode_id decode_id encode_by_blog encode_by_id json_feed_not_indexed json_feed_unregistered json_feed_by_blog update_ghost_post)).empty?
+if (ARGV & %w(--version -v help --help encode decode encode_id decode_id encode_by_blog encode_by_id json_feed_not_indexed json_feed_unregistered json_feed_by_blog update_ghost_post generate_ghost_api_token)).empty?
   Commonmeta::CLI.start(ARGV.dup.unshift("convert"))
 else
   Commonmeta::CLI.start

data/lib/commonmeta/cli.rb

@@ -121,6 +121,13 @@ module Commonmeta
       puts update_ghost_post_via_api(id)
     end
 
+    desc "", "generate_ghost_api_token"
+
+    def generate_ghost_api_token
+      # generate short lived jwt for ghost admin api
+      puts generate_ghost_token
+    end
+
     default_task :convert
   end
 end

data/lib/commonmeta/readers/json_feed_reader.rb

@@ -21,7 +21,7 @@ module Commonmeta
         meta = string.present? ? JSON.parse(string) : {}
 
         url = normalize_url(meta.fetch("url", nil))
-        id = options[:doi] ? normalize_doi(options[:doi]) : normalize_id(meta.fetch("id", nil))
+        id = options[:doi] ? normalize_doi(options[:doi]) : normalize_id(meta.fetch("doi", nil))
         id = url if id.blank? && url.present?
 
         type = "Article"
@@ -34,8 +34,8 @@ module Commonmeta
         publisher = { "name" => meta.dig("blog", "title") }
 
         date = {}
-        date["published"] = get_iso8601_date(meta.dig("date_published")) if meta.dig("date_published").present?
-        date["updated"] = get_iso8601_date(meta.dig("date_modified")) if meta.dig("date_modified").present?
+        date["published"] = get_date_from_unix_timestamp(meta.dig("published_at")) if meta.dig("published_at").present?
+        date["updated"] = get_date_from_unix_timestamp(meta.dig("updated_at")) if meta.dig("updated_at").present?
 
         license = if meta.dig("blog", "license").present?
             hsh_to_spdx("rightsURI" => meta.dig("blog", "license"))
@@ -62,7 +62,7 @@ module Commonmeta
           sum
         end
         references = get_references(meta)
-        alternate_identifiers = [{ "alternateIdentifier" => meta["uuid"], "alternateIdentifierType" => "UUID" }]
+        alternate_identifiers = [{ "alternateIdentifier" => meta["id"], "alternateIdentifierType" => "UUID" }]
 
         { "id" => id,
           "type" => type,
@@ -83,7 +83,7 @@ module Commonmeta
 
       def get_references(meta)
         # check that references resolve
-        Array.wrap(meta["references"]).reduce([]) do |sum, reference|
+        Array.wrap(meta["reference"]).reduce([]) do |sum, reference|
           begin
             if reference["doi"] && validate_doi(reference["doi"])
               response = HTTP.follow
@@ -122,7 +122,6 @@ module Commonmeta
         return { "string" => nil, "state" => "not_found" } unless response.status.success?
 
         posts = JSON.parse(response.body.to_s)
-        puts posts.inspect
         posts.map { |post| post["id"] }.first
       end
 

data/lib/commonmeta/utils.rb

@@ -1094,6 +1094,20 @@ module Commonmeta
       nil
     end
 
+    # parsing of unix timestamps such as 1427846400
+    def get_datetime_from_unix_timestamp(unix_timestamp)
+      strip_milliseconds(DateTime.strptime(unix_timestamp.to_s, "%s").iso8601)
+    rescue StandardError
+      nil
+    end
+
+    # parsing of unix timestamps such as 1427846400
+    def get_date_from_unix_timestamp(unix_timestamp)
+      DateTime.strptime(unix_timestamp.to_s, "%s").strftime("%Y-%m-%d")
+    rescue StandardError
+      nil
+    end
+
     # strip milliseconds if there is a time, as it interferes with edtc parsing
     # keep dates unchanged
     def strip_milliseconds(iso8601_time)
@@ -1453,9 +1467,11 @@ module Commonmeta
       "https://rogue-scholar.org/api/posts/#{id}"
     end
 
-    def generate_ghost_token(admin_api_key)
+    def generate_ghost_token(admin_api_key = ENV["API_KEY"])
       # from https://ghost.org/docs/admin-api/
 
+      return nil unless admin_api_key.present?
+
       # Split the key into ID and SECRET
       id, secret = admin_api_key.split(":")
 
@@ -1508,7 +1524,7 @@ module Commonmeta
 
       # update post canonical_url with new doi
       ghost_url = "#{api_url}/ghost/api/admin/posts/#{ghost_id}/"
-      response = HTTP.auth("Ghost #{ghost_jwt}").headers('Content-Type' => "application/json", 'Accept-Version' => 'v5').put(ghost_url, :json => { 'posts' => [{ 'canonical_url' => doi, 'updated_at' => updated_at }] })
+      response = HTTP.auth("Ghost #{ghost_jwt}").headers("Content-Type" => "application/json", "Accept-Version" => "v5").put(ghost_url, :json => { "posts" => [{ "canonical_url" => doi, "updated_at" => updated_at }] })
       "#{response.status} DOI #{doi} added to post #{ghost_id}"
     end
   end

data/lib/commonmeta/version.rb

@@ -1,5 +1,5 @@
 # frozen_string_literal: true
 
 module Commonmeta
-  VERSION = '3.3.16'
+  VERSION = '3.3.18'
 end

data/spec/cli_spec.rb

@@ -371,7 +371,7 @@ describe Commonmeta::CLI do
     end
     
     it "json_feed_not_indexed" do
-      expect { subject.json_feed_not_indexed }.to output(/b1038a3f-c5aa-4a68-97cb-5c68b27942f7/).to_stdout
+      expect { subject.json_feed_not_indexed }.to output(/r294649-6f79289-8cw1w/).to_stdout
     end
 
     it "json_feed_by_blog" do

data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/blog_post_with_non-url_id.yml

@@ -23,28 +23,28 @@ http_interactions:
       Cache-Control:
       - public, max-age=0, must-revalidate
       Content-Length:
-      - '8562'
+      - '2106'
       Content-Type:
       - application/json; charset=utf-8
       Date:
-      - Sun, 18 Jun 2023 15:23:52 GMT
+      - Mon, 10 Jul 2023 21:04:54 GMT
       Etag:
-      - '"12ofvtx6pm66lo"'
+      - '"13pz9o7pqcg1mi"'
       Server:
       - Vercel
       Strict-Transport-Security:
       - max-age=63072000
       X-Matched-Path:
-      - "/api/posts/[slug]"
+      - "/api/posts/[[...params]]"
       X-Vercel-Cache:
       - MISS
       X-Vercel-Id:
-      - fra1::iad1::v8bjb-1687101832274-be4cfdb8ff78
+      - fra1::iad1::jbp2f-1689023094094-f2a6094c04f1
       Connection:
       - close
     body:
       encoding: UTF-8
-      string: '{"id":"https://doi.org/10.59350/63055-a8604","uuid":"1898d2d7-4d87-4487-96c4-3073cf99e9a5","url":"http://sfmatheson.blogspot.com/2023/01/quintessence-of-dust-2023-restart-why.html","title":"Quintessence
+      string: '{"id":"1898d2d7-4d87-4487-96c4-3073cf99e9a5","doi":"https://doi.org/10.59350/63055-a8604","url":"http://sfmatheson.blogspot.com/2023/01/quintessence-of-dust-2023-restart-why.html","title":"Quintessence
         of Dust 2023 restart: the why","summary":"It''s early January 2023, a little
         before sunset in Tucson. Live image below, showing the glorious Santa Catalina
         mountains (the snow on the upper reaches is more apparent earlier in the day)
@@ -52,85 +52,15 @@ http_interactions:
         to start writing here at Quintessence of Dust, after another long hiatus.
         Here are some of my reasons.1. I like to write, and I have things to say,
         and I self-identify as an author. For eight years, I have co-organized and
-        taught in...","date_published":"2023-01-09T03:03:00Z","date_modified":"2023-04-02T21:17:07Z","date_indexed":"2023-06-18T13:32:03.284651+00:00","authors":[{"url":null,"name":"Stephen
-        Matheson"}],"image":null,"content_html":"It''s early January 2023, a little
-        before sunset in Tucson. Live image below, showing the glorious Santa Catalina
-        mountains (the snow on the upper reaches is more apparent earlier in the day)
-        and my dinner preparations (shrimp and veggies on the grill).<div class=\"separator\"
-        style=\"clear: both; text-align: center;\"><a href=\"https://blogger.googleusercontent.com/img/b/R29vZ2xl/AVvXsEghgBx9BU21qMDFnLxgHmnsl6TQVfb3QCwOXrC1zcXq7WH9gN8E0TcH3pTslRBG6O8mb5gcuF9JVtDlJ2je6dFcfyzKE4OD38-ftr66nBxddo892_NkyuevrrX65ndSbwmXMaLh3F5yiqU1QIj8JtA8FLkKOcHOEVwVafz0rzh7PejbFzp3XT25nQxc/s4032/Jan%207.jpg\"
-        style=\"clear: right; float: right; margin-bottom: 1em; margin-left: 1em;\"><img
-        border=\"0\" data-original-height=\"4032\" data-original-width=\"3024\" height=\"320\"
-        src=\"https://blogger.googleusercontent.com/img/b/R29vZ2xl/AVvXsEghgBx9BU21qMDFnLxgHmnsl6TQVfb3QCwOXrC1zcXq7WH9gN8E0TcH3pTslRBG6O8mb5gcuF9JVtDlJ2je6dFcfyzKE4OD38-ftr66nBxddo892_NkyuevrrX65ndSbwmXMaLh3F5yiqU1QIj8JtA8FLkKOcHOEVwVafz0rzh7PejbFzp3XT25nQxc/s320/Jan%207.jpg\"
-        width=\"240\" /></a></div><br /><div><div>I''ve decided to start writing here
-        at <i>Quintessence of Dust</i>, after another long hiatus. Here are some of
-        my reasons.</div><div><br /></div><div>1. I like to write, and I have things
-        to say, and I self-identify as an author. For eight years, I have co-organized
-        and taught in the <a href=\"https://meetings.cshl.edu/courses.aspx?course=C-WRITE&amp;year=23\"
-        target=\"_blank\">Scientific Writing Retreat at Cold Spring Harbor Laboratory</a>.
-        I''m a writer and I need to write, if only for myself.</div><div><br /></div><div>2.
-        I have an idea for a book, along with some introductory work (but no sample
-        chapters yet) and writing here will help me develop those thoughts. The idea
-        is over twelve years old and has never faded away, which I take to mean that
-        I need to get it out of my system somehow.</div><div><br /></div><div>3. I
-        have other ideas kicking around in my head and most of them are worth writing
-        about. I have one new intellectual passion that is totally worth writing about:
-        <a href=\"https://skyislandalliance.org/the-sky-islands/\" target=\"_blank\">the
-        Sky Islands</a>&nbsp;that nearly surround us here in Tucson.</div><div><br
-        /></div><div>4. I have an exciting new job with great new people at <a href=\"https://plos.org/\"
-        target=\"_blank\">an organization</a> that''s all in for <a href=\"https://plos.org/open-science/\"
-        target=\"_blank\">open science</a>. I recently turned over the tens digit
-        on my age-o-meter. My kids will very soon be all out of college. (One is about
-        to start a postdoc!) All of this led, predictably, to a spasm of reflection
-        on projects and vision. One clear result is that I''m feeling more inspired.<span><a
-        name=''more''></a></span></div><div><br /></div><div>5. The demise of Twitter
-        has led to a lot of <a href=\"https://www.theatlantic.com/technology/archive/2022/11/twitter-facebook-social-media-decline/672074/\"
-        target=\"_blank\">useful commentary</a> about the nature of social media.
-        I left Facebook two years ago and all but left Twitter two months ago. I''m
-        on a&nbsp;<a href=\"https://fediscience.org/explore\" target=\"_blank\">good
-        server at Mastodon</a>&nbsp;and I like it; maybe microblogging there can satisfy
-        my desire for conversation and connection. But <a href=\"https://www.theverge.com/23513418/bring-back-personal-blogging\"
-        target=\"_blank\">this recent piece</a> at <i>The Verge</i> by <a href=\"https://moniquejudge.com/\"
-        target=\"_blank\">Monique Judge</a> convinced me that blogging could (again)
-        have a place in the future.</div><div><br /><div>Here''s her summary, emphasis
-        mine:</div><div><blockquote>At the end of the day, we don’t know what is going
-        to happen next with Twitter or any of these platforms. We don’t know what
-        changes <a href=\"https://www.techtarget.com/whatis/definition/Web-30\" target=\"_blank\">Web
-        3.0</a> is going to bring to the internet. We do know that <b>we will all
-        still be here, wanting to share our thoughts, talk about anything and everything,
-        and commune with our people</b>. Personal blogging is the simplest and fastest
-        way to do all of that.&nbsp;</blockquote></div><div>That''s what I want! A
-        place to write, and (if I''m lucky) a place to discuss and \"commune\" with
-        people. That used to happen a lot at <i>Quintessence of Dust</i>.<span></span></div></div></div><div><br
-        /></div><div>Okay, but why here? This blog is over 15 years old and was started
-        when I was a Christian believer. <a href=\"https://sfmatheson.blogspot.com/2007/08/kicking-off-my-blog.html\"
-        target=\"_blank\">Its founding themes</a> were anchored in a desire to help
-        Christians understand and enjoy biology, to help them shake free of misinformation
-        and dishonesty. It has twice languished through long hiatuses and was <a href=\"https://sfmatheson.blogspot.com/p/about.html\"
-        target=\"_blank\">remodeled</a> back in 2017 a few years after I deconverted.
-        Maybe it''s time to start anew? I think not, for many of those same reasons:
-        I''m still a biologist who loves science, still worried about misinformation,
-        and still rooted in the power of scientific explanation. I''m still a bardolator
-        and a Red Sox fan. <a href=\"https://sfmatheson.blogspot.com/p/about.html\">I''m
-        still me</a>, and <i>Quintessence of Dust</i> is still my blog. The new <a
-        href=\"https://sfmatheson.blogspot.com/p/about.html\" target=\"_blank\">About
-        page</a> is slightly remodeled from 2017, and hints at the next post, which
-        will outline some new goals and ongoing projects.</div><div><br /></div><div>A
-        final note on inspiration, from Imani Perry, writing in her newsletter (<a
-        href=\"https://newsletters.theatlantic.com/unsettled-territory/\" target=\"_blank\">Unsettled
-        Territory</a>) at <i>The Atlantic</i>. The piece is \"<a href=\"https://newsletters.theatlantic.com/unsettled-territory/63af3facace609003751bacc/becoming-writer-habit-journalism/\"
-        target=\"_blank\">Writing is a Democratic Art</a>.\" It''s for subscribers
-        only but here is her challenge:</div><div><blockquote>Thinking and writing
-        at a faster pace stretched me and gave me greater confidence. Sometimes I
-        changed my mind about what I’d written a day later. But that was okay; a newsletter
-        is a moment in time. Writing it each week gave me a lovely rhythm in what
-        has otherwise been a difficult and disorienting season in history. Feeling
-        stuck can get you stuck. But writing can, and should, inspire deeds.</blockquote></div>","tags":["Introduction"],"language":"en","references":[],"blog_id":"5764g49","blog":{"id":"5764g49","title":"Quintessence
-        of Dust","description":"<i>Quintessence of Dust</i> explores science, society,
-        and human nature, focusing on genetics, development, evolution, neuroscience,
-        systems biology, and topics related to scientific literacy. I occasionally
-        discuss intelligent design, creationism, science denial, and other political/social
-        influences on scientific literacy. Additional topics: philosophy, baseball,
-        scientific culture, and Shakespeare. My main theme is <b><u>scientific explanation</u></b>.","language":"en","favicon":null,"feed_url":"http://sfmatheson.blogspot.com/feeds/posts/default","home_page_url":"http://sfmatheson.blogspot.com/","user_id":"8498eaf6-8c58-4b58-bc15-27eda292b1aa","created_at":"2023-05-31T14:21:27+00:00","indexed_at":"2023-04-18","feed_format":"application/atom+xml","license":"https://creativecommons.org/licenses/by/4.0/legalcode","generator":"Blogger
-        7.00","category":"Social Sciences","prefix":"10.59350","modified_at":"2023-06-06T20:22:00+00:00","version":"https://jsonfeed.org/version/1.1","backlog":true,"authors":null}}'
-  recorded_at: Sun, 18 Jun 2023 15:23:52 GMT
-recorded_with: VCR 6.1.0
+        taught in...","published_at":1673233380,"updated_at":1680470227,"indexed_at":1689006804,"authors":[{"url":null,"name":"Stephen
+        Matheson"}],"image":null,"tags":["Introduction"],"language":"en","reference":[],"blog_id":"5764g49","blog_name":"Quintessence
+        of Dust","blog":{"id":"5764g49","title":"Quintessence of Dust","description":"<i>Quintessence
+        of Dust</i> explores science, society, and human nature, focusing on genetics,
+        development, evolution, neuroscience, systems biology, and topics related
+        to scientific literacy. I occasionally discuss intelligent design, creationism,
+        science denial, and other political/social influences on scientific literacy.
+        Additional topics: philosophy, baseball, scientific culture, and Shakespeare.
+        My main theme is <b><u>scientific explanation</u></b>.","language":"en","favicon":null,"feed_url":"http://sfmatheson.blogspot.com/feeds/posts/default","home_page_url":"http://sfmatheson.blogspot.com/","user_id":"8498eaf6-8c58-4b58-bc15-27eda292b1aa","created_at":"2023-05-31T14:21:27+00:00","indexed_at":"2023-04-18","feed_format":"application/atom+xml","license":"https://creativecommons.org/licenses/by/4.0/legalcode","generator":"Blogger
+        7.00","category":"Social Sciences","prefix":"10.59350","modified_at":"2023-07-05T03:41:45+00:00","version":"https://jsonfeed.org/version/1.1","backlog":true,"current_feed_url":null,"expired":null}}'
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-      string: '{"id":"https://doi.org/10.59350/37y2z-gre70","uuid":"f3629c86-06e0-42c0-844a-266b03a91ef1","url":"https://iphylo.blogspot.com/2023/05/ten-years-and-million-links.html","title":"Ten
+      string: '{"id":"f3629c86-06e0-42c0-844a-266b03a91ef1","doi":"https://doi.org/10.59350/37y2z-gre70","url":"https://iphylo.blogspot.com/2023/05/ten-years-and-million-links.html","title":"Ten
         years and a million links","summary":"As trailed on a Twitter thread last
         week I’ve been working on a manuscript describing the efforts to map taxonomic
         names to their original descriptions in the taxonomic literature. Putting
@@ -52,52 +52,13 @@ http_interactions:
         basically “um, what, exactly, have you been doing all these years?”. TL;DR
         Across fungi, plants, and animals approx 1.3 million names have been linked
         to a persistent identifier for a publication.— Roderic Page (@rdmpage) May
-        25,...","date_published":"2023-05-31T17:26:00Z","date_modified":"2023-05-31T17:29:40Z","date_indexed":"2023-06-16T11:31:55.22232+00:00","authors":[{"url":null,"name":"Roderic
-        Page"}],"image":null,"content_html":"<p>As trailed on a Twitter thread last
-        week I’ve been working on a manuscript describing the efforts to map taxonomic
-        names to their original descriptions in the taxonomic literature.</p>\n<blockquote
-        class=\"twitter-tweet\"><p lang=\"en\" dir=\"ltr\">Putting together a manuscript
-        on linking taxonomic names to the primary literature, basically “um, what,
-        exactly, have you been doing all these years?”. TL;DR Across fungi, plants,
-        and animals approx 1.3 million names have been linked to a persistent identifier
-        for a publication.</p>— Roderic Page (@rdmpage) <a href=\"https://twitter.com/rdmpage/status/1661714128413573120?ref_src=twsrc%5Etfw\">May
-        25, 2023</a></blockquote> \n<p>The preprint is on bioRxiv <a href=\"https://doi.org/10.1101/2023.05.29.542697\">doi:10.1101/2023.05.29.542697</a></p>\n<blockquote>\n<p>A
-        major gap in the biodiversity knowledge graph is a connection between taxonomic
-        names and the taxonomic literature. While both names and publications often
-        have persistent identifiers (PIDs), such as Life Science Identifiers (LSIDs)
-        or Digital Object Identifiers (DOIs), LSIDs for names are rarely linked to
-        DOIs for publications. This article describes efforts to make those connections
-        across three large taxonomic databases: Index Fungorum, International Plant
-        Names Index (IPNI), and the Index of Organism Names (ION). Over a million
-        names have been matched to DOIs or other persistent identifiers for taxonomic
-        publications. This represents approximately 36% of names for which publication
-        data is available. The mappings between LSIDs and publication PIDs are made
-        available through ChecklistBank. Applications of this mapping are discussed,
-        including a web app to locate the citation of a taxonomic name, and a knowledge
-        graph that uses data on researcher’s ORCID ids to connect taxonomic names
-        and publications to authors of those names.</p>\n</blockquote>\n<p>Much of
-        the work has been linking taxa to names, which still has huge gaps. There
-        are also interesting differences in coverage between plants, animals, and
-        fungi (see preprint for details).</p>\n\n<div class=\"separator\" style=\"clear:
-        both;\"><a href=\"https://blogger.googleusercontent.com/img/b/R29vZ2xl/AVvXsEhdWsSQhqi1DErXMIHm28g37-fiALNIsI5eQZmvoX_Fe03ZSwtKHbYt-LCsCCAUop0AGcwy_w7NpIjylVH1hNrM9oW-6j9e6tHASha49TTqFvDg2_tEx3r74RRFsjUo4M_Qat8NmKaZSChOt2hI3LsMjTVLrEVirEckU-9Ei7ug-7OHQlR4LA/s2276/animals-coverage.png\"
-        style=\"display: block; padding: 1em 0; text-align: center; \"><img alt=\"\"
-        border=\"0\" width=\"320\" data-original-height=\"2276\" data-original-width=\"2276\"
-        src=\"https://blogger.googleusercontent.com/img/b/R29vZ2xl/AVvXsEhdWsSQhqi1DErXMIHm28g37-fiALNIsI5eQZmvoX_Fe03ZSwtKHbYt-LCsCCAUop0AGcwy_w7NpIjylVH1hNrM9oW-6j9e6tHASha49TTqFvDg2_tEx3r74RRFsjUo4M_Qat8NmKaZSChOt2hI3LsMjTVLrEVirEckU-9Ei7ug-7OHQlR4LA/s320/animals-coverage.png\"/></a></div><div
-        class=\"separator\" style=\"clear: both;\"><a href=\"https://blogger.googleusercontent.com/img/b/R29vZ2xl/AVvXsEjdyxlVJ-oyMCNPmHtHWjSxdxMSJvgzdWRGRF6Ad4dk7ab7gGDpuKdKmS9XhROkopw361ylfsTd1ZkwkF6BN0JlWNnVLCKY1AfryCfWKHkgPQM7u-0SELW9j8RlQIflb6ibaV64gwW7oJrEvOGECvR51F8EW8cRg-1usW-GBM5ymObj7zlObQ/s2276/fungi-coverage.png\"
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-        border=\"0\" width=\"320\" data-original-height=\"2276\" data-original-width=\"2276\"
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-        class=\"separator\" style=\"clear: both;\"><a href=\"https://blogger.googleusercontent.com/img/b/R29vZ2xl/AVvXsEgf0YBuvNSXWAJTfQ1jk4XSocMzCYHP7t6IPUqhjQ3mftgM_850igWaD2copgNH6Xk6T62xBU641wvwOvXgCCDY3m2xC_gaILXO9RGx8H3Gpy5OOncsLb9smpT2LIgtYOExVBVdDRWqA0AZ8-mQjWL7dL5TiG7MqVu8spT8ACoGOPR_T36hRA/s2276/plants-coverage.png\"
-        style=\"display: block; padding: 1em 0; text-align: center; \"><img alt=\"\"
-        border=\"0\" width=\"320\" data-original-height=\"2276\" data-original-width=\"2276\"
-        src=\"https://blogger.googleusercontent.com/img/b/R29vZ2xl/AVvXsEgf0YBuvNSXWAJTfQ1jk4XSocMzCYHP7t6IPUqhjQ3mftgM_850igWaD2copgNH6Xk6T62xBU641wvwOvXgCCDY3m2xC_gaILXO9RGx8H3Gpy5OOncsLb9smpT2LIgtYOExVBVdDRWqA0AZ8-mQjWL7dL5TiG7MqVu8spT8ACoGOPR_T36hRA/s320/plants-coverage.png\"/></a></div>\n\n\nThere
-        is also a simple app to demonstrate these links, see <a href=\"https://species-cite.herokuapp.com\">https://species-cite.herokuapp.com</a>.\n\n\n\n<blockquote>\n<p>Written
-        with <a href=\"https://stackedit.io/\">StackEdit</a>.</p>\n</blockquote>","tags":[],"language":"en","references":[],"blog_id":"tyfqw20","blog":{"id":"tyfqw20","title":"iPhylo","description":"Rants,
+        25,...","published_at":1685553960,"updated_at":1685554180,"indexed_at":1689006804,"authors":[{"url":"https://orcid.org/0000-0002-7101-9767","name":"Roderic
+        Page"}],"image":null,"tags":[],"language":"en","reference":[],"blog_id":"tyfqw20","blog_name":"iPhylo","blog":{"id":"tyfqw20","title":"iPhylo","description":"Rants,
         raves (and occasionally considered opinions) on phyloinformatics, taxonomy,
         and biodiversity informatics.  For more ranty and less considered opinions,
         see my <a href=\"https://twitter.com/rdmpage\">Twitter feed</a>.<br>ISSN 2051-8188.
         Written content on this site is licensed under a <a href=\"https://creativecommons.org/licenses/by/4.0/\">Creative
         Commons Attribution 4.0 International license</a>.","language":"en","favicon":null,"feed_url":"https://iphylo.blogspot.com/feeds/posts/default","home_page_url":"https://iphylo.blogspot.com/","user_id":"8498eaf6-8c58-4b58-bc15-27eda292b1aa","created_at":"2023-05-31T08:03:14+00:00","indexed_at":"2023-02-06","feed_format":"application/atom+xml","license":"https://creativecommons.org/licenses/by/4.0/legalcode","generator":"Blogger
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