add first pass at indexing austraits; related to globalbioticinteractions/globalbioticinteractions#1129

Author: Jorrit Poelen

.github/workflows/review.yml

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+# This workflow will review a GloBI indexed dataset.
+# For more information see: https://globalbioticinteractions.org
+
+name: GloBI review by Elton
+
+on:
+  push:
+    branches: [ '*' ]
+  pull_request:
+    branches: [ '*' ]
+  schedule:
+    - cron: "0 0 * * 1"
+
+jobs:
+  review:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - name: Set up JDK 1.8
+        uses: actions/setup-java@v4
+        with:
+          distribution: 'temurin'
+          java-version: '8'
+      - name: download review script
+        run: curl --silent -L "https://raw.githubusercontent.com/globalbioticinteractions/globinizer/master/check-dataset.sh" > check-dataset.sh
+      - name: download network compiler script
+        run: |
+          curl --silent -L "https://raw.githubusercontent.com/globalbioticinteractions/globinizer/master/compile-network.sh" > compile-network.sh
+          chmod +x compile-network.sh
+      - name: review dataset
+        run: bash check-dataset.sh "${GITHUB_REPOSITORY}"
+      - name: Share review report
+        uses: actions/upload-artifact@v4
+        with:
+          name: review-report
+          path: |
+            README.txt
+            HEAD
+            data.zip
+            index*
+            review*
+            zenodo*
+            nanopub*
+            *.svg
+            *.bib
+            *.nq
+            check-dataset.sh

.gitignore

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+.elton/
+add_travis_artifact_upload_keys.sh
+datasets/

README.md

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+[![GloBI Review by Elton](../../actions/workflows/review.yml/badge.svg)](../../actions/workflows/review.yml) [![GloBI](https://api.globalbioticinteractions.org/interaction.svg?accordingTo=globi:globalbioticinteractions/austraits&refutes=true&refutes=false)](https://globalbioticinteractions.org/?accordingTo=globi:globalbioticinteractions/austraits)
+
+Configuration to help Global Biotic Interactions (GloBI, https://globalbioticinteractions.org) index: 
+
+Falster, Gallagher et al (2021) AusTraits, a curated plant trait database for the Australian flora. Scientific Data 8: 254, https://doi.org/10.1038/s41597-021-01006-6
+
+To help facilitate indexing of this dataset, we re-used:
+
+
+Falster, D., Gallagher, R., Wenk, E., & Sauquet, H. (2025). AusTraits: a curated plant trait database for the Australian flora [Data set]. In Scientific Data (v7.0.0, Vol. 8, p. 254). Zenodo. https://doi.org/10.5281/zenodo.15718081
+
+by extracting a versioned copy of the source data using
+
+```
+preston track --algo md5 https://zenodo.org/records/15718081/files/austraits-7.0.0.zip
+```
+
+to be followed by the unpacking of the zip file via
+
+```
+unzip <(preston cat hash://md5/f169a9bca41d847df4fb8c6011ee3ea8)
+```
+
+and gzipping traits.csv to reduce the filesize, and symlinking sources.bib to help compatibility with GloBI's review mechanism.
+
+## Files
+
+All files originate from AusTrait except for those annotated explicitly below.
+
+├── biblio.bib -> sources.bib (added to facilitate GloBI indexing/review)
+├── build_info.md
+├── contexts.csv
+├── contributors.csv
+├── definitions.yml
+├── excluded_data.csv
+├── globi.json (added to facilitate GloBI indexing/review)
+├── interaction_types_mapping.csv (added to facilitate GloBI indexing/review)
+├── locations.csv
+├── metadata.yml
+├── methods.csv
+├── README.md (added to facilitate GloBI indexing/review)
+├── schema.yml
+├── sources.bib
+├── taxa.csv
+├── taxonomic_updates.csv
+└── traits.csv.gz (gzipped to reduce file size)
+
+## Provenance 
+
+```
+<https://preston.guoda.bio> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://www.w3.org/ns/prov#SoftwareAgent> <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<https://preston.guoda.bio> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://www.w3.org/ns/prov#Agent> <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<https://preston.guoda.bio> <http://purl.org/dc/terms/description> "Preston is a software program that finds, archives and provides access to biodiversity datasets."@en <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://www.w3.org/ns/prov#Activity> <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> <http://purl.org/dc/terms/description> "A crawl event that discovers biodiversity archives."@en <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> <http://www.w3.org/ns/prov#startedAtTime> "2025-12-04T21:49:33.416Z"^^<http://www.w3.org/2001/XMLSchema#dateTime> <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> <http://www.w3.org/ns/prov#wasStartedBy> <https://preston.guoda.bio> <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<https://doi.org/10.5281/zenodo.1410543> <http://www.w3.org/ns/prov#usedBy> <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<https://doi.org/10.5281/zenodo.1410543> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://purl.org/dc/dcmitype/Software> <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<https://doi.org/10.5281/zenodo.1410543> <http://purl.org/dc/terms/bibliographicCitation> "Jorrit Poelen, Icaro Alzuru, & Michael Elliott. 2018-2024. Preston: a biodiversity dataset tracker (Version 0.11.3-SNAPSHOT@07633f95a0dd9e7e07602298fc1ae57b15cf9549) [Software]. Zenodo. https://doi.org/10.5281/zenodo.1410543"@en <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<urn:uuid:0659a54f-b713-4f86-a917-5be166a14110> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://www.w3.org/ns/prov#Entity> <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<urn:uuid:0659a54f-b713-4f86-a917-5be166a14110> <http://purl.org/dc/terms/description> "A biodiversity dataset graph archive."@en <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> .
+<hash://md5/f169a9bca41d847df4fb8c6011ee3ea8> <http://www.w3.org/ns/prov#wasGeneratedBy> <urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> <urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> .
+<hash://md5/f169a9bca41d847df4fb8c6011ee3ea8> <http://www.w3.org/ns/prov#qualifiedGeneration> <urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> <urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> .
+<urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> <http://www.w3.org/ns/prov#generatedAtTime> "2025-12-04T21:49:38.519Z"^^<http://www.w3.org/2001/XMLSchema#dateTime> <urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> .
+<urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://www.w3.org/ns/prov#Generation> <urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> .
+<urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> <http://www.w3.org/ns/prov#wasInformedBy> <urn:uuid:9acdd7bb-2c56-4877-8449-942c3251feff> <urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> .
+<urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> <http://www.w3.org/ns/prov#used> <https://zenodo.org/records/15718081/files/austraits-7.0.0.zip> <urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> .
+<https://zenodo.org/records/15718081/files/austraits-7.0.0.zip> <http://purl.org/pav/hasVersion> <hash://md5/f169a9bca41d847df4fb8c6011ee3ea8> <urn:uuid:952647c9-e305-4568-99be-0b8fc93f81ba> .
+```

biblio.bib

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+sources.bib

build_info.md

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+$version
+[1] "7.0.0"
+
+$git_SHA
+[1] "b6eb14cec4043dbd0bc360fe8967bfdf34ade73e"
+
+$session_info
+R version 4.4.2 (2024-10-31)
+Platform: aarch64-apple-darwin20
+Running under: macOS Sequoia 15.5
+
+Matrix products: default
+BLAS:   /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib 
+LAPACK: /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRlapack.dylib;  LAPACK version 3.12.0
+
+locale:
+[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
+
+time zone: Australia/Sydney
+tzcode source: internal
+
+attached base packages:
+[1] stats     graphics  grDevices datasets  utils     methods   base     
+
+other attached packages:
+[1] traits.build_2.1.0 austraits_3.1.0    RefManageR_1.4.0   tidyr_1.3.1       
+[5] stringr_1.5.1      readr_2.1.5        lubridate_1.9.4    dplyr_1.1.4       
+[9] datapasta_3.1.0   
+
+loaded via a namespace (and not attached):
+ [1] styler_1.10.3     generics_0.1.4    xml2_1.3.8        stringi_1.8.7     hms_1.1.3        
+ [6] digest_0.6.37     magrittr_2.0.3    timechange_0.3.0  R.oo_1.27.1       R.cache_0.17.0   
+[11] plyr_1.8.9        jsonlite_2.0.0    processx_3.8.6    R.utils_2.13.0    backports_1.5.0  
+[16] brio_1.1.5        ps_1.9.1          httr_1.4.7        purrr_1.0.4       bibtex_0.5.1     
+[21] cli_3.6.5.9000    rlang_1.1.6       crayon_1.5.3.9000 R.methodsS3_1.8.2 bit64_4.6.0-1    
+[26] withr_3.0.2       yaml_2.3.10       parallel_4.4.2    tools_4.4.2       tzdb_0.5.0       
+[31] vctrs_0.6.5       R6_2.6.1          lifecycle_1.0.4   bit_4.6.0         fs_1.6.6         
+[36] vroom_1.6.5       pkgconfig_2.0.3   desc_1.4.3        callr_3.7.6       pkgdown_2.1.1    
+[41] pillar_1.10.2     glue_1.8.0        Rcpp_1.0.14       tibble_3.3.0      tidyselect_1.2.1 
+[46] testthat_3.2.3    rdoc_0.1.0.9000   compiler_4.4.2   
+