31.0.5

31.0.5 (2024-03-07)

Dependency updates

• core-deps: update protelis to v17.3.19 (8e168a6)
• core-deps: update protelis to v17.3.20 (ad12381)
• deps: update dependency io.github.classgraph:classgraph to v4.8.166 (f643413)
• deps: update dependency io.github.classgraph:classgraph to v4.8.167 (531c1e1)
• deps: update kotlin monorepo to v1.9.23 (3c653f2)
• deps: update plugin kotlin-qa to v0.60.3 (beb06a9)
• deps: update plugin org.danilopianini.gradle-pre-commit-git-hooks to v2.0.3 (1c9618d)
• deps: update plugin publishoncentral to v5.0.25 (fb1034d)
• deps: update react to v18.2.0-pre.710 (4bd9c44)

General maintenance

• build: update the javadoc.io cache (f4931e4)
• build: update the javadoc.io cache (338e6fa)
• build: update the javadoc.io cache (17b307d)
• build: update the javadoc.io cache (27df486)
• build: update the javadoc.io cache (0bc37ab)

31.0.4

31.0.4 (2024-03-05)

Dependency updates

• core-deps: update protelis to v17.3.18 (e476561)
• deps: update external-resources/learning-scafi-alchemist digest to a991077 (790cc07)
• deps: update plugin kotlin-qa to v0.60.2 (8717b58)
• deps: update plugin org.danilopianini.gradle-pre-commit-git-hooks to v2.0.2 (f63e609)
• deps: update plugin publishoncentral to v5.0.24 (e76ac96)
• deps: update site/themes/hugo-theme-relearn digest to d81b4dd (3a7b3e7)

General maintenance

• build: update the javadoc.io cache (2dc6f3b)

31.0.3

31.0.3 (2024-03-04)

Dependency updates

• deps: update dependency ch.qos.logback:logback-classic to v1.5.2 (e923f6e)
• deps: update dependency ch.qos.logback:logback-classic to v1.5.3 (3721adf)
• deps: update dependency io.arrow-kt:arrow-core to v1.2.3 (20a1a2e)
• deps: update dependency org.codehaus.groovy:groovy-jsr223 to v3.0.21 (03459f9)
• deps: update dependency org.mockito:mockito-core to v5.11.0 (fe5086a)
• deps: update external-resources/learning-scafi-alchemist digest to 5c76df7 (b248fbc)
• deps: update external-resources/learning-scafi-alchemist digest to 7495823 (b3efb7b)
• deps: update ktor to v2.3.9 (989a90a)
• deps: update npm to v10.5.0 (c15ad52)
• deps: update plugin gitsemver to v3.1.2 (0573326)
• deps: update plugin java-qa to v1.38.0 (6f28ff4)
• deps: update react to v18.2.0-pre.706 (cfd5b9e)
• deps: update react to v18.2.0-pre.707 (febaba0)
• deps: update react to v18.2.0-pre.708 (875c0c5)
• deps: update react to v18.2.0-pre.709 (406563f)
• deps: update site/themes/hugo-theme-relearn digest to 02be3c3 (b3ba5e6)
• deps: update site/themes/hugo-theme-relearn digest to 3425f39 (c389786)
• deps: update site/themes/hugo-theme-relearn digest to 8b46dae (e281f71)
• deps: update site/themes/hugo-theme-relearn digest to cb7fdce (4de29f0)
• deps: update site/themes/hugo-theme-relearn digest to d42fa70 (9450eac)

Documentation

• deps: update dependency org.jetbrains.dokka to v1.9.20 (e71ccfd)

Build and continuous integration

• deps: update actions/download-artifact action to v4.1.4 (f78cee3)
• deps: update danysk/build-check-deploy-gradle-action action to v2.4.6 (3229298)

General maintenance

• build: update the javadoc.io cache (5cb4c55)
• build: update the javadoc.io cache (648a6d2)
• build: update the javadoc.io cache (bbe74cd)

31.0.2

31.0.2 (2024-02-29)

Dependency updates

• deps: update dependency ch.qos.logback:logback-classic to v1.5.1 (a6fdde1)
• deps: update dependency io.arrow-kt:arrow-core to v1.2.2 (bb62021)
• deps: update dependency org.mongodb:mongodb-driver-sync to v5 (f3418f4)
• deps: update external-resources/learning-scafi-alchemist digest to 3183171 (9f06338)
• deps: update external-resources/learning-scafi-alchemist digest to 81167d0 (4fecb01)
• deps: update external-resources/learning-scafi-alchemist digest to e4faf88 (58c8268)
• deps: update plugin java-qa to v1.37.0 (1ea1ca3)
• deps: update react to v18.2.0-pre.700 (fd9a7fe)
• deps: update react to v18.2.0-pre.701 (ac33882)
• deps: update react to v18.2.0-pre.702 (de6e961)
• deps: update react to v18.2.0-pre.703 (7640781)
• deps: update react to v18.2.0-pre.704 (659d937)
• deps: update react to v18.2.0-pre.705 (fddf253)
• deps: update scala to v2.13.13 (07ac8da)
• deps: update site/themes/hugo-theme-relearn digest to 065d27f (e9cb855)
• deps: update site/themes/hugo-theme-relearn digest to 06637ff (7a8569a)
• deps: update site/themes/hugo-theme-relearn digest to 0d6fff1 (eaa6ede)
• deps: update site/themes/hugo-theme-relearn digest to 1427f10 (410c554)
• deps: update site/themes/hugo-theme-relearn digest to 2fe2ef2 (424bee4)
• deps: update site/themes/hugo-theme-relearn digest to 4e5fe8d (3ee0427)
• deps: update site/themes/hugo-theme-relearn digest to 7e83840 (76b3dfe)
• deps: update site/themes/hugo-theme-relearn digest to 9618ea9 (231798b)
• deps: update site/themes/hugo-theme-relearn digest to c0091ee (8a9eb32)
• deps: update site/themes/hugo-theme-relearn digest to e1cc3bd (5703a6f)
• deps: update site/themes/hugo-theme-relearn digest to fdf5904 (c99fefa)

Bug Fixes

• loading: fix exception on exporting short-named properties and add the related regression test (#3147) (81a024e)

Build and continuous integration

• deps: update actions/download-artifact action to v4.1.3 (74fc5af)
• deps: update danysk/build-check-deploy-gradle-action action to v2.4.3 (6b5cc56)
• deps: update danysk/build-check-deploy-gradle-action action to v2.4.4 (798f293)
• deps: update danysk/build-check-deploy-gradle-action action to v2.4.5 (686478f)
• deps: update fedora docker tag to v41 (231e615)

General maintenance

• build: update the javadoc.io cache (12be1ef)
• build: update the javadoc.io cache (6245adf)
• build: update the javadoc.io cache (8ed30ac)
• build: update the javadoc.io cache (c843c00)

31.0.1

31.0.1 (2024-02-20)

Bug Fixes

• loading: pass down time distribution's arguments to incarnations without string conversions (48965bc)
• move the legacy CLI interface to the multivesta adapter (4e53c5b)

Build and continuous integration

• drop apache commons CLI from the main project (9e49c02)
• remove duplicated library (534a921)
• sort dokka version alphabetically (4766c22)

31.0.0

31.0.0 (2024-02-18)

⚠ BREAKING CHANGES

• api: add support for building nodes, reactions, conditions, and actions wth arbitrary objects at the Incarnation level

Features

• api: add support for building nodes, reactions, conditions, and actions wth arbitrary objects at the Incarnation level (3c70db4)

Dependency updates

• deps: update dependency ch.qos.logback:logback-classic to v1.5.0 (5e05201)
• deps: update dependency org.jetbrains.kotlinx:kotlinx-coroutines-core to v1.8.0 (2128707)
• deps: update dependency org.jetbrains.kotlinx:kotlinx-serialization-json to v1.6.3 (0c56e04)
• deps: update external-resources/learning-scafi-alchemist digest to 2a28c52 (4cfe7a7)
• deps: update external-resources/learning-scafi-alchemist digest to ec538fd (ac34cb3)
• deps: update react to v18.2.0-pre.697 (bc6ac0d)
• deps: update react to v18.2.0-pre.698 (b6ebfaa)
• deps: update site/themes/hugo-theme-relearn digest to 0754286 (69d9bfd)
• deps: update site/themes/hugo-theme-relearn digest to 0b9fae5 (a840328)
• deps: update site/themes/hugo-theme-relearn digest to 1d91cb1 (4916fbf)
• deps: update site/themes/hugo-theme-relearn digest to 22a36ca (47f0f62)
• deps: update site/themes/hugo-theme-relearn digest to 288c660 (a5767f0)
• deps: update site/themes/hugo-theme-relearn digest to de97e8b (f90f3d0)

Bug Fixes

• biochemistry: fail-fast on non-positive cell diameters (a82dc53)

Build and continuous integration

• deps: update danysk/build-check-deploy-gradle-action action to v2.4.1 (65a8769)
• deps: update danysk/build-check-deploy-gradle-action action to v2.4.2 (4ce3746)
• rpm installation with softlink and workflow fixes (#3120) (645d6f9)
• use the retry system builtin in the action (855dcaa)
• website: do not use the gradle run action for checking the website (740f17b)
• website: write the docker command on a single line (f124c9f)

General maintenance

• build: update the javadoc.io cache (7597cad)
• build: update the javadoc.io cache (c5c3b9f)
• build: update the javadoc.io cache (e6bc602)
• incarnation-sapere: annotate SapereIncarnation's serialVersionUID with @Serial (68dafae)

Style improvements

• incarnation-protelis: fix indentation in ProtelisIncarnation (b0a7d78)
• incarnation-protelis: use modern java instanceof assignment in ProtelisIncarnation (af875bc)
• swingui: fix warnings in NumericTextField (f0812dd)

30.1.11

30.1.11 (2024-02-12)

Dependency updates

• deps: update dependency commons-codec:commons-codec to v1.16.1 (68caece)
• deps: update external-resources/learning-scafi-alchemist digest to 4a7871a (dba6780)
• deps: update plugin kotlin-qa to v0.60.1 (faf0e23)
• deps: update react to v18.2.0-pre.696 (58b7a60)
• deps: update site/themes/hugo-theme-relearn digest to 4bc5529 (04d9afc)

Bug Fixes

• aur: make the PKGBUILD directory writeable before running makepkg (7f94d45)

Build and continuous integration

• aur: fix print and surround path with double quotes (ad75919)

General maintenance

• build: update the javadoc.io cache (5588856)

30.0.5

30.0.5 (2024-02-04)

Dependency updates

• core-deps: update protelis to v17.3.12 (e0bef4e)
• deps: update dependency gradle to v8.6 (dd9ac54)
• deps: update external-resources/learning-scafi-alchemist digest to 1647722 (297e09f)
• deps: update external-resources/learning-scafi-alchemist digest to 90a1462 (0d95013)
• deps: update external-resources/learning-scafi-alchemist digest to bf49e2f (b38675d)
• deps: update external-resources/learning-scafi-alchemist digest to f452087 (06230e2)
• deps: update ktor to v2.3.8 (6ee3007)
• deps: update plugin kotlin-qa to v0.59.1 (3b0465e)
• deps: update plugin publishoncentral to v5.0.23 (7e02243)
• deps: update react to v18.2.0-pre.692 (ddc733d)
• deps: update react to v18.2.0-pre.693 (87fd358)

Build and continuous integration

• deps: update danysk/build-check-deploy-gradle-action action to v2.2.17 (a9c53ab)
• deps: update danysk/build-check-deploy-gradle-action action to v2.2.18 (ec46305)
• deps: update danysk/build-check-deploy-gradle-action action to v2.2.20 (ffdb80d)
• website: exclude the scafi docs from the link sanity check (not an Alchemist problem to verify the external sources) (#3108) (b999194)

30.0.4

30.0.4 (2024-02-01)

Dependency updates

• core-deps: update protelis to v17.3.11 (98cea45)
• deps: update external-resources/learning-scafi-alchemist digest to af4e3fa (142daec)
• deps: update external-resources/learning-scafi-alchemist digest to d085e8d (75ed9f0)
• deps: update external-resources/learning-scafi-alchemist digest to e1dcb40 (eecab26)
• deps: update gohugoio/hugo action to v0.122.0 (76e268e)
• deps: update npm to v10.4.0 (3b665f0)
• deps: update plugin com.gradle.enterprise to v3.16.2 (a2c3f94)
• deps: update plugin java-qa to v1.36.0 (07813d7)
• deps: update plugin kotlin-qa to v0.59.0 (6bdb6f3)
• deps: update react to v18.2.0-pre.691 (57f1b53)
• deps: update site/themes/hugo-theme-relearn digest to eaabbfd (dcf0df6)

Build and continuous integration

• deps: update danysk/build-check-deploy-gradle-action action to v2.2.16 (58b6c87)
• speed-up the workflow by uploading and downloading the shadowJars instead of regerating them (#3079) (9d0ba2e)

30.0.3

30.0.3 (2024-01-26)

Dependency updates

• deps: update dependency org.mockito:mockito-core to v5.10.0 (4731a45)

Bug Fixes

• loading: fix the DefaultLauncher batch execution throwing RejectedExecutionException, add a regression test (b43436e)

Build and continuous integration

• deps: update danysk/build-check-deploy-gradle-action action to v2.2.15 (cab66a5)
• disable fail-fast for packaging jobs (ce9076f)