commonmeta-ruby 3.3.17 → 3.4.0

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Files changed (44) hide show
  1. checksums.yaml +4 -4
  2. data/Gemfile.lock +37 -50
  3. data/bin/commonmeta +1 -1
  4. data/lib/commonmeta/cli.rb +7 -0
  5. data/lib/commonmeta/crossref_utils.rb +20 -0
  6. data/lib/commonmeta/readers/json_feed_reader.rb +19 -1
  7. data/lib/commonmeta/schema_utils.rb +1 -1
  8. data/lib/commonmeta/utils.rb +6 -4
  9. data/lib/commonmeta/version.rb +1 -1
  10. data/resources/{commonmeta_v0.9.2.json → commonmeta_v0.9.3.json} +32 -2
  11. data/spec/cli_spec.rb +1 -1
  12. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/blog_post_with_non-url_id.yml +84 -18
  13. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/blogger_post.yml +42 -14
  14. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_with_author_name_suffix.yml +184 -55
  15. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_with_doi.yml +76 -15
  16. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_with_institutional_author.yml +33 -12
  17. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_with_organizational_author.yml +44 -11
  18. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_with_related_identifiers.yml +366 -0
  19. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_without_doi.yml +144 -11
  20. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/jekyll_post.yml +42 -13
  21. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/jekyll_post_with_anonymous_author.yml +17 -13
  22. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/substack_post_with_broken_reference.yml +557 -262
  23. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/syldavia_gazette_post_with_references.yml +76 -47
  24. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/upstream_post_with_references.yml +303 -123
  25. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/wordpress_post.yml +108 -12
  26. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/wordpress_post_with_many_references.yml +3048 -441
  27. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/wordpress_post_with_references.yml +178 -31
  28. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/wordpress_post_with_tracking_code_on_url.yml +139 -17
  29. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/another_schema_org_from_front-matter.yml +47 -48
  30. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/journal_article.yml +5 -5
  31. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/journal_article_from_datacite.yml +7 -7
  32. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_from_rogue_scholar_with_anonymous_author.yml +17 -13
  33. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_from_rogue_scholar_with_doi.yml +108 -12
  34. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_from_rogue_scholar_with_organizational_author.yml +44 -11
  35. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_from_rogue_scholar_with_relations.yml +366 -0
  36. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_from_upstream_blog.yml +200 -11
  37. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_with_references.yml +303 -123
  38. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/posted_content.yml +16 -16
  39. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/schema_org_from_another_science_blog.yml +17 -17
  40. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/schema_org_from_front_matter.yml +111 -113
  41. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/schema_org_from_upstream_blog.yml +64 -57
  42. data/spec/readers/json_feed_reader_spec.rb +85 -57
  43. data/spec/writers/crossref_xml_writer_spec.rb +76 -40
  44. metadata +6 -4
data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_with_references.yml CHANGED
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  Research Software Alliance (ReSA)","summary":"Research software is a key part
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- of most research today. As University of Manchester Professor Carole Goble
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- has said, \"software is the ubiquitous instrument of science.\" Creating and
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- maintaining research software is a human effort, and as Yanina Bellina, rOpenSci
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+ of most research today.","content_html":" <p><img src=\"https://upstream.force11.org/content/images/2023/04/resa-logo-7.png\"
50
+ /></p><p>Research software is a key part of most research today. As University
51
+ of Manchester Professor Carole Goble has said, \"software is the ubiquitous
52
+ instrument of science.\" Creating and maintaining research software is a human
53
+ effort, and as Yanina Bellina, rOpenSci Community Manager, has said, \"the
54
+ work of the people who develop and maintain research software is often hidden
55
+ and needs to be recognized.\"</p><p>Studies of researchers at leading UK universities
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+ [<a href=\"https://www.software.ac.uk/blog/2014-12-04-its-impossible-conduct-research-without-software-say-7-out-10-uk-researchers?bw\">1</a>] and
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+ of postdoctoral researchers in the US [<a href=\"https://doi.org/10.6084/m9.figshare.5328442\">2</a>]
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+ have found that over 90% use research software, over 65% see research software
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+ as fundamental to their research, and 25-55% develop software as part of the
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+ research.</p><p>Research software, being ubiquitous, is difficult to concisely
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+ define. One recent attempt [<a href=\"https://doi.org/10.54900/9akm9y5-5ject5y\">3</a>]
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+ says that research software:</p><figure><img src=\"https://upstream.force11.org/content/images/2023/04/rob-v2-table-6.jpg\"
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+ loading=\"lazy\" width=\"1080\" height=\"608\" srcset=\"https://upstream.force11.org/content/images/size/w600/2023/04/rob-v2-table-6.jpg
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+ 600w, https://upstream.force11.org/content/images/size/w1000/2023/04/rob-v2-table-6.jpg
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+ 1000w, https://upstream.force11.org/content/images/2023/04/rob-v2-table-6.jpg
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+ 1080w\" /><figcaption>Figure from <a href=\"https://doi.org/10.54900/9akm9y5-5ject5y\">https://doi.org/10.54900/9akm9y5-5ject5y</a></figcaption></figure><p>Once
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+ research software is developed, however, users can find bugs, users can want
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+ new features, and the underlying hardware and software on which the software
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+ is built (e.g., libraries, OS) can change. The research software needs to
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+ be manually maintained in response to these issues. In other words, research
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+ software is not a one-time investment, but requires ongoing maintenance.</p><p>Research
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+ software sustainability can be defined as occurring when the resources (people,
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+ funding, etc.) to enable maintenance are gathered and applied. </p><p>This
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+ is different from challenges for publications and datasets because while research
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+ software can similarly be a research result and research product, it has properties
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+ that differ from papers and datasets, and needs different policies and funding
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+ models.</p><h2>Research Software Alliance (ReSA)</h2><p>In response to these
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+ facts, the <a href=\"http://www.researchsoft.org/\">Research Software Alliance
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+ (ReSA)</a> was founded in 2019 by the <a href=\"https://ardc.edu.au/\">Australia
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+ Research Data Commons (ARDC)</a>, the <a href=\"https://alliancecan.ca/en\">Digital
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+ Research Alliance of Canada</a>, the <a href=\"https://www.ncsa.illinois.edu/\">National
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+ Center for Supercomputing Applications (NCSA)</a>, the <a href=\"https://www.esciencecenter.nl/\">Netherlands
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+ eScience Center</a>, and the <a href=\"https://www.software.ac.uk/\">Software
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+ Sustainability Institute (SSI)</a> to help these organisations and other stakeholders
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+ collaborate on the advancement of the research software ecosystem. </p><p>ReSA''s
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+ vision is that research software and those who develop and maintain it are
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+ recognised and valued as fundamental and vital to research worldwide, while
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+ its mission is to advance the research software ecosystem by collaborating
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+ with key influencers and decision makers.</p><p>ReSA is a fiscally-sponsored
90
+ project of <a href=\"https://www.codeforsociety.org/\">Code for Science &amp;
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+ Society</a>, has part time <a href=\"https://www.researchsoft.org/people/\">staff
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+ members </a>who include a Director, Dr Michelle Barker, and Community Managers
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+ located in Africa, Asia, Australia and Canada, and is led by a <a href=\"https://www.researchsoft.org/people/\">steering
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+ committee</a> chaired by Daniel S. Katz, Chief Scientist at NCSA at the University
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+ of Illinois Urbana Champaign. ReSA has received support totalling USD$663,500
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+ in cash, and USD$344,000 (details are <a href=\"https://www.researchsoft.org/about-resa/\">publicly
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+ available</a>) as in-kind contributions from its <a href=\"https://www.researchsoft.org/about-resa/\">sponsors</a>,
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+ <a href=\"https://www.researchsoft.org/about-resa/\">Founding Members</a>,
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+ and <a href=\"https://www.researchsoft.org/membership/\">Organisational Members</a>.</p><h2>Activities</h2><p>ReSA
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+ accomplishes work primarily through forums and task forces. </p><h3><a href=\"https://www.researchsoft.org/funders-forum/\">Funders
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+ Forum</a></h3><p>The ReSA Funders Forum, a collaboration of 30+ research software
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+ funding organisations, started in 2022. The organisations represented are
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+ currently about 2/3 government, 1/4 philanthropic, and 1/12 industry. Geographically,
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+ 41% are in Europe, 34% in North America, 17% in Australasia, and 4% each in
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+ African and South America.</p><p>The Funders Forum provides a formal mechanism
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+ for funders to share funding practices, address research software community
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+ challenges, facilitate networks and collaboration, and consider how to achieve
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+ long-term sustainability for research software. It meets monthly, with each
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+ meeting repeating twice in a day to allow those in different time zones to
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+ participate each time, and shifting in time from month to month to allow different
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+ sets of participants to form each time. Each meeting includes short presentations
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+ from funders on their new activities, and a discussion topic that is either
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+ led by ReSA or by a funder, such as on diversity, equity, and inclusion in
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+ research software, open source program offices, collaboration mechanisms,
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+ and landscape analysis. The Funder Forums also has working groups in which
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+ more focused activities can occur, such as planning for a multi-organisational
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+ funding call and defining policies around FAIR for research software.</p><p>Discussions
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+ in the ReSA steering committee and the funders forum led ReSA and the Netherlands
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+ eScience Center to co-convene the “<a href=\"https://future-of-research-software.org/\">International
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+ Funders Workshop: The Future of Research Software</a>” in Amsterdam in November
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+ 2022, with representation from 45 funding organisations (those who provide
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+ monetary and/or in-kind support to research software and/or the people who
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+ develop and maintain it). </p><figure><img src=\"https://upstream.force11.org/content/images/2023/04/52502576946_04a37f7888_k.jpg\"
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+ loading=\"lazy\" width=\"2000\" height=\"1334\" srcset=\"https://upstream.force11.org/content/images/size/w600/2023/04/52502576946_04a37f7888_k.jpg
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+ 600w, https://upstream.force11.org/content/images/size/w1000/2023/04/52502576946_04a37f7888_k.jpg
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+ 1000w, https://upstream.force11.org/content/images/size/w1600/2023/04/52502576946_04a37f7888_k.jpg
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+ 1600w, https://upstream.force11.org/content/images/2023/04/52502576946_04a37f7888_k.jpg
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+ 2048w\" /><figcaption><a href=\"https://www.flickr.com/photos/esciencecenter/52502576946/in/album-72177720303712317/&amp;sa=D&amp;source=docs&amp;ust=1681327121704634&amp;usg=AOvVaw0eLOLV0UmKvACkvx-vuQCj\">Photo
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+ via Flickr</a>. Credit: <a href=\"https://https://anneliesverhelst.com/&amp;sa=D&amp;source=docs&amp;ust=1681327121686238&amp;usg=AOvVaw29udzgf41EP21WHifLfeUF\">Annelies
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+ Verhelst</a>.</figcaption></figure><p>In this workshop, attendees discussed
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+ a draft of the Amsterdam Declaration on Funding Research Software Sustainability
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+ [<a href=\"https://doi.org/10.5281/zenodo.7330541\">4</a>], which continues
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+ to be <a href=\"https://adore.software/\">open for consultation</a>. </p><figure><img
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+ src=\"https://upstream.force11.org/content/images/2023/04/52502848059_61f6ab1780_k.jpg\"
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+ loading=\"lazy\" width=\"2000\" height=\"1331\" srcset=\"https://upstream.force11.org/content/images/size/w600/2023/04/52502848059_61f6ab1780_k.jpg
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+ 600w, https://upstream.force11.org/content/images/size/w1000/2023/04/52502848059_61f6ab1780_k.jpg
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+ 1000w, https://upstream.force11.org/content/images/size/w1600/2023/04/52502848059_61f6ab1780_k.jpg
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+ 1600w, https://upstream.force11.org/content/images/2023/04/52502848059_61f6ab1780_k.jpg
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+ 2048w\" /><figcaption><a href=\"https://www.flickr.com/photos/esciencecenter/52502848059/in/album-72177720303712317/\">Photo
140
+ via Flickr</a>. Credit: <a href=\"https://anneliesverhelst.com/&amp;sa=D&amp;source=docs&amp;ust=1681327121686238&amp;usg=AOvVaw29udzgf41EP21WHifLfeUF\">Annelies
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+ Verhelst</a>.</figcaption></figure><h3><a href=\"https://www.researchsoft.org/events/2022-06/\">Community
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+ Forum</a></h3><p>ReSA hosts an occasional online community forum for the global
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+ research software community, as an opportunity for participants to meet and
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+ share information. Each call features a short talk and follow-up discussion,
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+ with the aim of facilitating community consideration about what’s needed next
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+ to address particular issues. The Community Forum is open to everyone. Meetings
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+ occur at alternating times to maximise attendance by participants in different
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+ time zones. Meeting topics have included:</p><ul><li>Outcomes of Vive la différence
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+ - research software engineers [<a href=\"https://doi.org/10.5281/zenodo.6859709\">5</a>],
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+ a workshop that considered how to reframe research software engineering to
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+ place diversity, equity and inclusion as a central organising principle</li><li>The
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+ Research Software Roadmap</li><li>Aligning publisher policies for sharing
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+ code</li><li>The Research Software Community in the Global South [<a href=\"https://doi.org/10.5281/zenodo.7179892\">6</a>]</li><li><a
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+ href=\"https://future-of-research-software.org/\">The International Funders
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+ Workshop</a></li></ul><h3><a href=\"https://www.researchsoft.org/taskforces/\">Task
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+ Forces</a></h3><ul><li>Evidence for the importance of research software (completed,
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+ 2020): identified and analysed resources [<a href=\"https://doi.org/10.5281/zenodo.3884311\">7</a>]
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+ that demonstrate the importance of research software to research outcomes,
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+ to provide information for sharing with key influencers.</li><li>Software
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+ sections of RDA COVID-19 Guidelines and Recommendations for policy makers,
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+ funders and the research community (completed, 2020) [<a href=\"https://doi.org/10.15497/RDA00052\">8</a>]:
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+ helping COVID-19 stakeholders follow best practices to maximise the efficiency
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+ of their work, and to act as a blueprint for future emergencies.</li><li>FAIR
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+ for research software (completed, 2022): Jointly with FORCE11 and RDA, developed
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+ the FAIR for research software (FAIR4RS) principles [<a href=\"https://doi.org/10.15497/RDA00068\">9</a>]</li><li>FAIR
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+ 4 Research Software Roadmap (completed, 2022) [<a href=\"https://doi.org/10.5281/zenodo.6239373\">10</a>]:
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+ Identified key stakeholders in areas arising from the application of the FAIR
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+ principles to research software, to guide strategic planning and investment.
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+ Consultation with key stakeholders enabled mapping of existing projects that
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+ apply some of the elements of the FAIR principles to research software into
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+ a longer-term framework to improve strategic alignment and potential collaborators/leads
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+ for parts of the Roadmap.</li><li>Software landscape analysis (completed,
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+ 2022): Mapping the international research software community landscape</li><li>Initial
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+ mapping (2020) [<a href=\"https://doi.org/10.5281/zenodo.3699950\">11</a>]</li><li>Expanded
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+ mapping of the Global South (2022) [<a href=\"https://doi.org/10.5281/zenodo.7179892\">6</a>]</li><li>Code
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+ availability (active): Jointly with FORCE11, working towards greater alignment
177
+ on policy and other related actions for code (the code associated with the
178
+ findings of an article) being made available alongside (or prior to) the publication
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+ of the article.</li><li><a href=\"https://www.researchsoft.org/funding-opportunities/\">Database
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+ of research funding software opportunities</a> (active): maintaining, adding
181
+ to, and analysing the database to better understand opportunities and their
182
+ characteristics.</li><li>Research institution policies to support research
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+ software (starting): is building a <a href=\"https://docs.google.com/spreadsheets/d/1YgXG1eSrby8e5wzqYOiOZW6KmJtR-wdBTrjr1_aMtF4/edit#gid=0\">collection
184
+ of institutional policies</a> that support research software and the people
185
+ who develop and maintain it, and work to better share them with interested
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+ stakeholders.</li></ul><p>In addition, ReSA participates in ad hoc activities
187
+ that support its mission, such as sharing diversity, equity, and inclusion
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+ best practices at the 2022 Vive la difference - research software engineers
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+ hybrid workshop [<a href=\"https://doi.org/10.5281/zenodo.6859709\">5</a>].</p><figure><img
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+ src=\"https://upstream.force11.org/content/images/2023/04/s22004-lcp-vive-la-difference-04---623c6b3946587.png\"
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+ loading=\"lazy\" width=\"2000\" height=\"2828\" srcset=\"https://upstream.force11.org/content/images/size/w600/2023/04/s22004-lcp-vive-la-difference-04---623c6b3946587.png
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+ 600w, https://upstream.force11.org/content/images/size/w1000/2023/04/s22004-lcp-vive-la-difference-04---623c6b3946587.png
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+ 1000w, https://upstream.force11.org/content/images/size/w1600/2023/04/s22004-lcp-vive-la-difference-04---623c6b3946587.png
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+ 1600w, https://upstream.force11.org/content/images/2023/04/s22004-lcp-vive-la-difference-04---623c6b3946587.png
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+ 2381w\" /></figure><h2>Participate</h2><p>ReSA provides freely available <a
196
+ href=\"https://www.researchsoft.org/resa-resources/\">resources</a> that anyone
197
+ can use to raise awareness of the importance of research software and a <a
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+ href=\"https://www.researchsoft.org/funding-opportunities/\">database</a>
199
+ or research software funding opportunities. </p><p>Anyone  can sign up to
200
+ receive updates on ReSA through its regular <a href=\"https://www.researchsoft.org/news/\">newsletter</a>,
201
+ provide information on <a href=\"https://docs.google.com/forms/d/e/1FAIpQLSdeZrx0kXAhD4XfpDrQ8Dmg4qJTRZWboMd-zvgjjtgBs1I68g/viewform\">new
202
+ funding calls</a> to our <a href=\"https://www.researchsoft.org/funding-opportunities/\">database</a>,
203
+ join <a href=\"https://www.researchsoft.org/taskforces/\">task forces</a>
204
+ focused on specific activities, and join the ReSA <a href=\"http://researchsoft.slack.com\">Slack</a>
205
+ to share what is happening in their community.</p><p>Anyone who represents
206
+ a funding organisation and wants to interact with other funders, can join
207
+ the (free) <a href=\"https://www.researchsoft.org/funders-forum/\">Research
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+ Software Funders Forum</a>.</p><p>Finally, ReSA is always looking for organisations
209
+ who want to become recognised as <a href=\"https://www.researchsoft.org/membership/\">organisational
210
+ members</a> in order to financially support its work.</p><h2>References</h2><ol><li>It’s
211
+ impossible to conduct research without software, say 7 out of 10 UK researchers.
212
+ Accessed April 13, 2023. <a href=\"https://www.software.ac.uk/blog/2014-12-04-its-impossible-conduct-research-without-software-say-7-out-10-uk-researchers\">https://www.software.ac.uk/blog/2014-12-04-its-impossible-conduct-research-without-software-say-7-out-10-uk-researchers</a></li><li>Nangia
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+ U, Katz DS. Track 1 Paper: Surveying the U.S. National Postdoctoral Association
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+ Regarding Software Use and Training in Research. Published online August 30,
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+ 2017. doi:<a href=\"https://doi.org/10.6084/m9.figshare.5328442.v3\">10.6084/m9.figshare.5328442.v3</a></li><li>Nieuwpoort
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+ R van, Katz DS. Defining the roles of research software. <em>Upstream</em>.
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+ Published online March 14, 2023. doi:<a href=\"https://doi.org/10.54900/9akm9y5-5ject5y\">10.54900/9akm9y5-5ject5y</a></li><li>Barker
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+ M, Hong NPC, Eijnatten J van, Katz DS. Amsterdam Declaration on Funding Research
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+ Software Sustainability. Published online March 16, 2023. doi:<a href=\"https://doi.org/10.5281/zenodo.7740084\">10.5281/zenodo.7740084</a></li><li>Barker
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+ M, Leung MA, Martinez PA, et al. <em>Report on Vive La Différence - Research
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+ Software Engineers</em>. Zenodo; 2022. doi:<a href=\"https://doi.org/10.5281/zenodo.6859709\">10.5281/zenodo.6859709</a></li><li>Martinez
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+ PA. The Research Software Community Landscape in the Global South. Published
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+ online October 10, 2022. doi:<a href=\"https://doi.org/10.5281/zenodo.7179892\">10.5281/zenodo.7179892</a></li><li>Barker
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+ M, Katz DS, Gonzalez-Beltran A. <em>Evidence for the Importance of Research
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+ Software</em>. Zenodo; 2020. doi:<a href=\"https://doi.org/10.5281/zenodo.3884311\">10.5281/zenodo.3884311</a></li><li>Research
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+ Data Alliance. Final release: COVID-19 guidelines. Published online 2020.
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+ doi:<a href=\"https://doi.org/10.15497/RDA00052\">10.15497/RDA00052</a></li><li>Chue
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+ Hong NP, Katz DS, Barker M, et al. FAIR Principles for Research Software (FAIR4RS
229
+ Principles). Published online 2021. doi:<a href=\"https://doi.org/10.15497/RDA00068\">10.15497/RDA00068</a></li><li>Barker,
230
+ Michelle. FAIR4RS Roadmap Report. Published online February 20, 2022. doi:<a
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+ href=\"https://doi.org/10.5281/ZENODO.6239373\">10.5281/ZENODO.6239373</a></li><li>Katz
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+ DS, Barker M, Martinez PA, Anzt H, Gonzalez-Beltran A, Bakker T. The Research
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+ Software Alliance (ReSA) and the community landscape. Published online March
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+ 11, 2020. doi:<a href=\"https://doi.org/10.5281/ZENODO.3699950\">10.5281/ZENODO.3699950</a><br
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+ /></li></ol> ","published_at":1681814212,"updated_at":1681814212,"indexed_at":1688982864,"authors":[{"url":"https://orcid.org/0000-0001-5934-7525","name":"Daniel
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