Release 0.19.3

Release fixing a couple of bugs.

What's Changed

• sbt build for Windows by @rohmk in #406
• Use only a single label for readable identifiers, rather than accidentally concatenating. by @balhoff in #414
• Fix error reporting at program exit. by @balhoff in #415

Dependency updates

• Update scowl to 1.4.1 by @scala-steward in #408
• Update sbt-git to 2.0.0 by @scala-steward in #407
• Update zio, zio-streams, zio-test, ... to 1.0.14 by @scala-steward in #409
• Update apache-jena-libs to 4.5.0 by @scala-steward in #411
• Update owlapi-distribution to 4.5.22 by @scala-steward in #413

New Contributors

• @rohmk made their first contribution in #406

Full Changelog: v0.19.2...v0.19.3

Release 0.19.2

This is a bug-fix release for an issue parsing IRI-valued annotation templates (#404).

What's Changed

• Order Annotations parsers so that the different subclasses are distinguishable. by @balhoff in #405

Dependency updates

• Update sbt-native-packager to 1.9.9 by @scala-steward in #401
• Update owlapi-distribution to 4.5.21 by @scala-steward in #399

Full Changelog: v0.19.1...v0.19.2

Release 0.19.1

Bugfix release for dosdp-tools query performance.

What's Changed

• Fix problematic SPARQL query ordering. by @balhoff in #403

Full Changelog: v0.19...v0.19.1

Release 0.19

What's Changed

• Output version and git hash for --version. by @balhoff in #392
• Propagate logging context. by @balhoff in #400

Dependency updates

• Update apache-jena-libs to 4.4.0 by @scala-steward in #391
• Update scribe-slf4j to 3.6.10 by @scala-steward in #390
• Update scala-library to 2.13.8 by @scala-steward in #385
• Update sbt to 1.5.8 by @scala-steward in #381
• Update robot-core to 1.8.3 by @scala-steward in #378
• Update zio, zio-streams, zio-test, ... to 1.0.13 by @scala-steward in #375
• Update scala-csv to 1.3.10 by @scala-steward in #377
• Update circe-yaml to 0.14.1 by @scala-steward in #345
• Update sbt-buildinfo to 0.11.0 by @scala-steward in #397
• Update scribe-slf4j to 3.7.1 by @scala-steward in #395
• Update sbt to 1.6.2 by @scala-steward in #394
• Update sbt-native-packager to 1.9.8 by @scala-steward in #396

Full Changelog: v0.18...v0.19

Release 0.18

Important: Beginning with this release, dosdp-tools requires Java 11 or higher.

What's Changed

• Multi clause printf by @hkir-dev in #336
• MultiClause zero2many support by @hkir-dev in #349
• Output a pattern conformance report as RDF for a batch query run. by @balhoff in #365
• hiding stacktrace for DOSDPError instances by @jdr0887 in #300
• Change print-query behavior to print to the console, and also run match. by @balhoff in #367
• Alphabetize docs index. by @balhoff in #368

Full Changelog: v0.17...v0.18

Release 0.17

New command, docs: output a Markdown file for each pattern.

Example command line:

dosdp-tools docs --obo-prefixes=true --batch-patterns="activator_activity anchored_membrane_component bounding_membrane_of_organelle cc_assembly cc_disassembly" --template=../go-ontology/src/design_patterns --outfile=docs --infile=../go-ontology/src/design_patterns --data-location-prefix='https://github.com/geneontology/go-ontology/tree/master/src/design_patterns/' --ontology=go-plus.owl

Release 0.16

Includes bug fixes as well as new feature for dosdp-tools query on annotation values.

Snapshot release for 0.16

Release for testing dosdp-tools query on annotation values. Example:

Command:

dosdp-tools query --obo-prefixes=true --template=cc_transport_from_to.yaml --restrict-axioms-to=annotation --ontology=go-base.owl

Ontology: http://purl.obolibrary.org/obo/go/go-base.owl

Pattern cc_transport_from_to.yaml :

pattern_name: 'cc_transport_from_to'

classes:
  transport: 'GO:0006810'
  cellular component: 'GO:0005575'

relations: 
  has_target_start_location: 'RO:0002338'
  has_target_end_location: 'RO:0002339'

vars:
 target_start: "'cellular component'"
 target_end: "'cellular component'"

readable_identifiers:
  - rdfs:label
  - oboInOwl:hasExactSynonym

name:
     text: "%s to %s transport"
     vars:
       - target_start
       - target_end
  
equivalentTo:
  text: " 'transport' and ('has_target_start_location' some %s) and ('has_target_end_location' some %s)"
  vars:
    - target_start
    - target_end

0.15.1-SNAPSHOT

Snapshot for testing.

Release 0.15

Bugfix to file suffixes in batch mode. Dependency updates.