(log file starts at Wed Sep 18 03:15:59 UTC 2024) [harvester info] --> Processing ricgraph (https://github.com/UtrechtUniversity/ricgraph) [Wed Sep 18 03:15:59 UTC 2024] [harvester info] Git updating cached clone of https://github.com/UtrechtUniversity/ricgraph... [harvester info] Found release v2.4 [harvester info] Using 'v2.4' [harvester info] Git reference: v2.4 [harvester info] Scanning directory /tmp/codemeta-harvester.cache/ricgraph for harvestable resources... [harvester info] found codemeta-harvest.json for ricgraph (md5sum f261f0f3173ac3fbe9321bd4903362cb); values in here take precendence over (override) those in later detection stages [harvester info] found CITATION.cff for ricgraph, converting to codemeta [harvester info] Looking for license.... [harvester info] Found license MIT [harvester info] Getting contributors from git... [harvester info] Getting top contributor from git... [harvester info] Git top contributor Rik D.T. Janssen <@> will be assigned as author (and maintainer) if none are found in the metadata [harvester info] Extracting last and first commit date from git log.... [harvester info] Date created: 2023-01-10T20:04:11Z+0100, date modified: 2024-09-10T14:00:59Z+0200 [harvester info] Querying Github/GitLab API (https://github.com/UtrechtUniversity/ricgraph) [harvester info] Adding URL for found README: README.md [harvester info] Found releaseNotes [harvester info] Querying Zenodo API for DOI (access token provided)... [harvester info] Found DOI https://doi.org/10.5281/zenodo.13740878 [harvester info] Looking for TRL information in README.md... [harvester info] Found TRL https://w3id.org/research-technology-readiness-levels#Level6LatePrototype [harvester info] Looking for repostatus information in README.md... [harvester info] Found repostatus https://www.repostatus.org/#active [harvester info] Looking for continuous integration information in README.md... [harvester info] Looking for documentation links in README.md... [harvester info] Falling back to git tag (v2.4) if no version number is specified... [harvester info] Inferring repostatus information from git activity (used only as a fallback if not explicitly provided)... [harvester info] Inferred repostatus https://www.repostatus.org/#active [harvester info] Looking for repostatus information in README.md in master branch... [harvester info] Found repostatus (master branch) https://www.repostatus.org/#active [harvester info] Reconciliating: codemetapy --baseuri https://tools.clariah.nl --baseuri https://tools.clariah.nl --includecontext --addcontext https://w3id.org/nwo-research-fields --addcontext https://w3id.org/research-technology-readiness-levels --addcontextgraph https://vocabs.dariah.eu/rest/v1/tadirah/data?format=text/turtle --trl --identifier "ricgraph" --codeRepository "https://github.com/UtrechtUniversity/ricgraph" --validate /etc/software.ttl --released --enrich --textv "Please consult the CLARIAH Software Metadata Requirements at https://github.com/CLARIAH/clariah-plus/blob/main/requirements/software-metadata-requirements.md for an in-depth explanation of any found problems" -O /tmp/out/ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/99-version.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/99-repostatus.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/90-authors.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/43-releasenotes.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/41-readme.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/40-gitapi.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/39-gitdate.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/32-contributors.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/29-license.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/12-citationcff.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/11-trl.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/11-repostatus.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/10-harvest.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/05-repostatus.ricgraph.codemeta.json /tmp/codemeta-harvester.cache//tmp/05-doi.ricgraph.codemeta.json -- begin log -- Passed 15 files/sources but specified 0 input types! Automatically guessing types... Detected input types: [('/tmp/codemeta-harvester.cache//tmp/99-version.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/99-repostatus.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/90-authors.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/43-releasenotes.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/41-readme.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/40-gitapi.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/39-gitdate.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/32-contributors.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/29-license.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/12-citationcff.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/11-trl.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/11-repostatus.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/10-harvest.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/05-repostatus.ricgraph.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/05-doi.ricgraph.codemeta.json', 'json')] Adding to contextgraph: /tmp/turtle Initial URI automatically generated, may be overriden later: https://tools.clariah.nl/ricgraph Processing source #1 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/99-version.ricgraph.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] processed 1 new triples, total is now 2 Processing source #2 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/99-repostatus.ricgraph.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] processed 1 new triples, total is now 3 Processing source #3 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/90-authors.ricgraph.codemeta.json Found main resource with URI https://tools.clariah.nl/ricgraph.topcontributor/snapshot Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] processed 7 new triples, total is now 9 Processing source #4 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/43-releasenotes.ricgraph.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] processed 2 new triples, total is now 11 Processing source #5 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/41-readme.ricgraph.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] processed 1 new triples, total is now 12 Processing source #6 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/40-gitapi.ricgraph.codemeta.json Found main resource with URI https://tools.clariah.nl/ricgraph/snapshot Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] processed 31 new triples, total is now 42 Processing source #7 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/39-gitdate.ricgraph.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] overriding old http://schema.org/dateCreated (2023-01-10T19:02:05Z -> 2023-01-10T20:04:11Z+0100) [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] overriding old http://schema.org/dateModified (2024-09-16T09:36:54Z -> 2024-09-10T14:00:59Z+0200) [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] processed 2 new triples, total is now 42 Processing source #8 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/32-contributors.ricgraph.codemeta.json Found main resource with URI https://tools.clariah.nl/ricgraph.contributors/snapshot Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] processed 7 new triples, total is now 43 Processing source #9 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/29-license.ricgraph.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] overriding old http://schema.org/license (http://spdx.org/licenses/MIT -> MIT) [CODEMETA CORRECTION (https://tools.clariah.nl/ricgraph)] automatically converting license to spdx URI [CODEMETA COMPOSITION (https://tools.clariah.nl/ricgraph)] processed 1 new triples, total is now 43 Processing source #10 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/12-citationcff.ricgraph.codemeta.json Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/author (https://tools.clariah.nl/stub/H-2e805eca38d415a7 -> https://tools.clariah.nl/stub/H333615d38d9e721e) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/description (Ricgraph - Research in context graph -> Ricgraph, also known as Research in context graph, enables the exploration of researchers, teams, their results, collaborations, skills, projects, and the relations between these items. Ricgraph can store many types of items into a single graph. These items can be obtained from various systems and from multiple organizations. Ricgraph facilitates reasoning about these items because it infers new relations between items, relations that are not present in any of the separate source systems. It is flexible and extensible, and can be adapted to new application areas. Throughout this text, we illustrate how Ricgraph works by applying it to the application area research information. Motivation Ricgraph, also known as Research in context graph, is software that is about relations between items. These items can be collected from various source systems and from multiple organizations. We explain how Ricgraph works by applying it to the application area research information. We show the insights that can be obtained by combining information from various source systems, insight arising from new relations that are not present in each separate source system. Research information is about anything related to research: research results, the persons in a research team, their collaborations, their skills, projects in which they have participated, as well as the relations between these entities. Examples of research results are publications, data sets, and software. Example use cases from the application area research information are: (1) As a journalist, I want to find researchers with a certain skill and their publications, so that I can interview them for a newspaper article. (2) As a librarian, I want to enrich my local research information system with research results that are in other systems but not in ours, so that we have a more complete view of research at our university. (3) As a researcher, I want to find researchers from other universities that have co-authored publications written by the co-authors of my own publications, so that I can read their publications to find out if we share common research interests. These use cases use different types of information (called items): researchers, skills, publications, etc. Most often, these types of information are not stored in one system, so the use cases may be difficult or time-consuming to answer. However, by using Ricgraph, these use cases (and many others) are easy to answer. Although this text illustrates Ricgraph in the application area research information, the principle "relations between items from various source systems" is general, so Ricgraph can be used in other application areas. Main contributions of Ricgraph (1) Ricgraph can store many types of items in a single graph. (2) Ricgraph harvests multiple source systems into a single graph. (3) Ricgraph Explorer is the exploration tool for Ricgraph. (4) Ricgraph facilitates reasoning about items because it infers new relations between items. (5) Ricgraph can be tailored for an application area. Read more about Ricgraph For a gentle introduction in Ricgraph, read the reference publication: Rik D.T. Janssen (2024). Ricgraph: A flexible and extensible graph to explore research in context from various systems. SoftwareX, 26(101736). https://doi.org/10.1016/j.softx.2024.101736 Extensive documentation, publications, videos and source code can be found in the GitHub repository https://github.com/UtrechtUniversity/ricgraph The website for Ricgraph can be found at https://www.ricgraph.eu) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (ricgraph-explorer -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (data-enrichment -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (harvester -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (ricgraph -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (linked-data -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (research-in-context-graph -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (enrichment -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (ricgraph-rest-api -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (knowledge-graph -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (visualization -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (graph -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (metadata -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (harvest-data -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (data-harvesting -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (graph-database -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (harvest -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/keywords (utrecht-university -> Ricgraph) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/license (http://spdx.org/licenses/MIT -> https://spdx.org/licenses/MIT) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/name (ricgraph -> Ricgraph - Research in context graph) [CODEMETA CORRECTION (https://doi.org/10.5281/zenodo.7524314)] automatically converting spdx license URI from https:// to http:/// [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] processed 31 new triples, total is now 50 Processing source #11 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/11-trl.ricgraph.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] processed 1 new triples, total is now 51 Processing source #12 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/11-repostatus.ricgraph.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] processed 1 new triples, total is now 51 Processing source #13 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/10-harvest.ricgraph.codemeta.json Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] processed 79 new triples, total is now 127 Processing source #14 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/05-repostatus.ricgraph.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] processed 1 new triples, total is now 127 Processing source #15 of 15 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/05-doi.ricgraph.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/ricgraph [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] overriding old http://schema.org/identifier (https://doi.org/10.5281/zenodo.7524314 -> ) [CODEMETA COMPOSITION (https://doi.org/10.5281/zenodo.7524314)] processed 5 new triples, total is now 131 Remapping URI to (possibly) new identifier and version component: https://tools.clariah.nl/ricgraph -> https://tools.clariah.nl/ricgraph/v2.4 [CODEMETA VALIDATION (ricgraph)] done [CODEMETA ENRICHMENT (ricgraph)] automatically adding runtimePlatform Python derived from programmingLanguage Python [CODEMETA ENRICHMENT (ricgraph)] considering first author as maintainer VALIDATION https://tools.clariah.nl/ricgraph/v2.4 #1: Info: Software source code *SHOULD* link to a continuous integration service that builds the software and runs the software's tests (This is missing in the metadata) VALIDATION https://tools.clariah.nl/ricgraph/v2.4 #2: Info: A research domain *SHOULD* be expressed as a category using the NWO Research Fields vocabulary, if applicable (This is missing in the metadata) -- end log -- [harvester info] Output written to /tmp/out/ricgraph.codemeta.json [harvester info] <-- Finished processing ricgraph (https://github.com/UtrechtUniversity/ricgraph) [Wed Sep 18 03:16:12 UTC 2024]