(log file starts at Wed Sep 18 03:17:18 UTC 2024) [harvester info] --> Processing stam-tools (https://github.com/annotation/stam-tools) [Wed Sep 18 03:17:18 UTC 2024] [harvester info] Git updating cached clone of https://github.com/annotation/stam-tools... [harvester info] Found release v0.8.0 [harvester info] Using 'v0.8.0' [harvester info] Git reference: v0.8.0 [harvester info] Scanning directory /tmp/codemeta-harvester.cache/stam-tools for harvestable resources... [harvester info] found codemeta-harvest.json for stam-tools (md5sum 2b827fccacf74d2f577ceb5c4ab5afe0); values in here take precendence over (override) those in later detection stages [harvester info] found Cargo.toml (rust) for stam-tools, converting to codemeta [harvester info] Looking for license.... [harvester info] Found license GPL-3.0-only [harvester info] Getting contributors from git... [harvester info] No git contributors found [harvester info] Getting top contributor from git... [harvester info] Git top contributor 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: 2023-03-21T15:44:21Z+0100, date modified: 2024-08-29T18:02:54Z+0200 [harvester info] Querying Github/GitLab API (https://github.com/annotation/stam-tools) [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.13507481 [harvester info] Looking for TRL information in README.md... [harvester info] Found TRL https://w3id.org/research-technology-readiness-levels#Level7ReleaseCandidate [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] Scraping title from https://docs.rs/regex/latest/regex/#syntax [harvester info] Found documentation at https://docs.rs/regex/latest/regex/#syntax : "name": "regex - Rust", [harvester info] Scraping title from https://docs.rs/stam-tools/ [harvester info] Found documentation at https://docs.rs/stam-tools/ : "name": "stamtools - Rust", [harvester info] Falling back to git tag (v0.8.0) 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] Setting group STAM [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 "stam-tools" --codeRepository "https://github.com/annotation/stam-tools" --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/stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/99-version.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/99-repostatus.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/90-authors.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/50-documentation.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/43-releasenotes.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/41-readme.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/40-gitapi.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/39-gitdate.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/29-license.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/23-rust.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/11-trl.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/11-repostatus.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/10-harvest.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/05-repostatus.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/05-doi.stam-tools.codemeta.json /tmp/codemeta-harvester.cache//tmp/04-applicationSuite.stam-tools.codemeta.json -- begin log -- Passed 16 files/sources but specified 0 input types! Automatically guessing types... Detected input types: [('/tmp/codemeta-harvester.cache//tmp/99-version.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/99-repostatus.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/90-authors.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/50-documentation.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/43-releasenotes.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/41-readme.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/40-gitapi.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/39-gitdate.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/29-license.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/23-rust.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/11-trl.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/11-repostatus.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/10-harvest.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/05-repostatus.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/05-doi.stam-tools.codemeta.json', 'json'), ('/tmp/codemeta-harvester.cache//tmp/04-applicationSuite.stam-tools.codemeta.json', 'json')] Adding to contextgraph: /tmp/turtle Initial URI automatically generated, may be overriden later: https://tools.clariah.nl/stam-tools Processing source #1 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/99-version.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 1 new triples, total is now 2 Processing source #2 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/99-repostatus.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 1 new triples, total is now 3 Processing source #3 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/90-authors.stam-tools.codemeta.json Found main resource with URI https://tools.clariah.nl/stam-tools.topcontributor/snapshot Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 1 new triples, total is now 3 Processing source #4 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/50-documentation.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 8 new triples, total is now 11 Processing source #5 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/43-releasenotes.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 2 new triples, total is now 13 Processing source #6 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/41-readme.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 1 new triples, total is now 14 Processing source #7 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/40-gitapi.stam-tools.codemeta.json Found main resource with URI https://tools.clariah.nl/stam-tools/snapshot Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 15 new triples, total is now 28 Processing source #8 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/39-gitdate.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] overriding old http://schema.org/dateCreated (2023-03-21T14:43:17Z -> 2023-03-21T15:44:21Z+0100) [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] overriding old http://schema.org/dateModified (2024-09-16T11:31:35Z -> 2024-08-29T18:02:54Z+0200) [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 2 new triples, total is now 28 Processing source #9 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/29-license.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] overriding old http://schema.org/license (http://spdx.org/licenses/GPL-3.0-only -> GPL-3.0-only) [CODEMETA CORRECTION (https://tools.clariah.nl/stam-tools)] automatically converting license to spdx URI [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 1 new triples, total is now 28 Processing source #10 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/23-rust.stam-tools.codemeta.json Found main resource with URI https://tools.clariah.nl/cargo.toml/0.8.0 Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] overriding old http://schema.org/description (Command line tools for working with standoff text annotations (STAM) -> Command-line tools for working with stand-off annotations on text (STAM)) [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] overriding old https://codemeta.github.io/terms/readme (https://github.com/annotation/stam-tools/blob/v0.8.0//README.md -> https://tools.clariah.nl/README.md) [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] overriding old http://schema.org/softwareHelp (https://docs.rs/regex/latest/regex/#syntax -> https://github.com/annotation/stam-tools) [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] overriding old http://schema.org/softwareHelp (https://docs.rs/stam-tools/ -> https://github.com/annotation/stam-tools) [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] overriding old http://schema.org/version (v0.8.0 -> 0.8.0) [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 63 new triples, total is now 80 Processing source #11 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/11-trl.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 1 new triples, total is now 81 Processing source #12 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/11-repostatus.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 1 new triples, total is now 81 Processing source #13 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/10-harvest.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] overriding old http://schema.org/producer (https://tools.clariah.nl/org/annotation -> https://tools.clariah.nl/stub/H-5e4c8f747bfebf59) [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 14 new triples, total is now 94 Processing source #14 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/05-repostatus.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 1 new triples, total is now 94 Processing source #15 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/05-doi.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 5 new triples, total is now 99 Processing source #16 of 16 Parsing json-ld file from /tmp/codemeta-harvester.cache//tmp/04-applicationSuite.stam-tools.codemeta.json NOTE: Not a valid JSON-LD document, @context missing! Attempting to inject automatically... Injected (possibly temporary) URI https://tools.clariah.nl/stam-tools [CODEMETA COMPOSITION (https://tools.clariah.nl/stam-tools)] processed 1 new triples, total is now 100 Remapping URI to (possibly) new identifier and version component: https://tools.clariah.nl/stam-tools -> https://tools.clariah.nl/stam-tools/0.8.0 [CODEMETA VALIDATION (stam-tools)] done [CODEMETA ENRICHMENT (stam-tools)] Guessing interface type https://w3id.org/software-types#CommandLineApplication based on clues [CODEMETA ENRICHMENT (stam-tools)] adding author https://tools.clariah.nl/person/maarten-van-gompel as contributor [CODEMETA ENRICHMENT (stam-tools)] considering first author as maintainer VALIDATION https://tools.clariah.nl/stam-tools/0.8.0 #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/stam-tools/0.8.0 #2: Warning: Documentation *SHOULD* be expressed (The metadata does express this currently, but something is wrong in the way it is expressed. Is the type/class valid?) VALIDATION https://tools.clariah.nl/stam-tools/0.8.0 #3: Info: Reference publications *SHOULD* be expressed, if any (This is missing in the metadata) -- end log -- [harvester info] Output written to /tmp/out/stam-tools.codemeta.json [harvester info] <-- Finished processing stam-tools (https://github.com/annotation/stam-tools) [Wed Sep 18 03:17:30 UTC 2024]