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GeezerVison is showing github.com — Migrate many SciJava Common subsystems by ctrueden · Pull Request #295 · scijava/scijava

Migrate many SciJava Common subsystems #295

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Migrate many SciJava Common subsystems #295

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5e9836a
docs: add SciJava Common migration plan
ctrueden Sep 16, 2026
82cd7c8
scijava-ops-image: stop using SciJava Common utilities
ctrueden Sep 16, 2026
71852f7
scijava-discovery: make Discoverer yield lazy descriptors
ctrueden Sep 16, 2026
0771222
Pin scijava-discovery and scijava-priority versions
ctrueden Sep 16, 2026
4b8feff
Pin every consumed SciJava artifact version
ctrueden Sep 16, 2026
9084574
scijava-spi: add a module of framework-free interfaces
ctrueden Sep 16, 2026
9a5b15e
scijava-common3: absorb general utilities from SciJava Common
ctrueden Sep 16, 2026
24ba06b
scijava-common3: add FilePaths, from SciJava Common's FileUtils
ctrueden Sep 16, 2026
7d73482
scijava-index: port annotation indexing, with a lazy Discoverer
ctrueden Sep 16, 2026
313843f
docs: correct the Phase 2 injection design
ctrueden Sep 16, 2026
790ec74
scijava-io3: port locations, standalone on plain ServiceLoader
ctrueden Sep 16, 2026
c7842b0
scijava-io3: port data handles
ctrueden Sep 16, 2026
ea1ac3c
Make cancellation thread interruption
ctrueden Sep 16, 2026
ef68624
scijava-concurrent: let cancellation survive a parallel section
ctrueden Sep 16, 2026
df12101
docs: do not port io.nio
ctrueden Sep 16, 2026
80f4333
scijava-io3: port ByteBufferByteBank, keeping direct banks off-heap
ctrueden Sep 16, 2026
5039837
scijava-events: a typed event bus, written clean
ctrueden Sep 16, 2026
e09d280
docs: record incarnational versioning, and defer scijava-persist
ctrueden Sep 17, 2026
f65c690
scijava-io3: start at 3.0.0-SNAPSHOT
ctrueden Sep 17, 2026
caa9640
scijava-context: the container core
ctrueden Sep 17, 2026
7822074
scijava-context: the plugin tier
ctrueden Sep 17, 2026
394b956
scijava-context: declarative dependency injection
ctrueden Sep 17, 2026
de2e89f
scijava-context: @EventHandler scanning
ctrueden Sep 17, 2026
2e01213
docs: scrutinize the core services, and settle the preferences design
ctrueden Sep 17, 2026
9156ef6
docs: use TOML rather than YAML for the settings store
ctrueden Sep 17, 2026
634d940
scijava-execute: run things that declare their inputs and outputs
ctrueden Sep 17, 2026
1e1e662
scijava-execute: the pre/postprocessor chain
ctrueden Sep 17, 2026
95b4e57
docs: say how Fiji gets built on SciJava3
ctrueden Sep 17, 2026
0138735
scijava-execute: generalize beyond Java classes, for scripts
ctrueden Sep 17, 2026
0e4ac38
scijava-command: discoverable commands, and the metadata menus need
ctrueden Sep 17, 2026
80bab69
One opens, to the container
ctrueden Sep 17, 2026
cfead6d
Add the menu tree, and make Access a static utility
ctrueden Sep 17, 2026
b6ff554
scijava-harvest: prototype the parameter dialog model
ctrueden Sep 17, 2026
df48f01
Support computed parameter choices, closing the DynamicCommand gap
ctrueden Sep 17, 2026
58fd161
scijava-ui3 and scijava-swing: widgets, and dialogs to click on
ctrueden Sep 17, 2026
0a57e16
Fix the widget bugs the demos turned up, and fill in the gaps
ctrueden Sep 17, 2026
1384996
Ignore Eclipse's .factorypath
ctrueden Sep 17, 2026
46a5f3e
migration.md: the command row was ported two commits ago
ctrueden Sep 17, 2026
193a373
A Swing shell: menus, search, status -- the first whole-stack demo
ctrueden Sep 18, 2026
19e9d00
scijava-javafx: a second binding, and what it proved
ctrueden Sep 18, 2026
ad4ed60
scijava-awt: a third binding, and where the shared code belongs
ctrueden Sep 18, 2026
ada9894
scijava-convert3: one question, and it sits below the container
ctrueden Sep 18, 2026
22c0dc6
scijava-script3: a script is an Executable like any other
ctrueden Sep 18, 2026
40d687d
Scripts declare their presentation, and menus take more than one source
ctrueden Sep 18, 2026
7c100d4
Name the general thing what users call it: CommandInfo
ctrueden Sep 18, 2026
477a544
The legacy bridge, and the split package it found
ctrueden Sep 18, 2026
1f0084d
One name per foreign library: scijava-compat, -ops-compat, -imagej-co…
ctrueden Sep 18, 2026
1d8efbd
migration.md: say what the presentation metadata actually does
ctrueden Sep 18, 2026
3a2aa7e
scijava-cli: run the same commands without a display
ctrueden Sep 18, 2026
eccf33e
scijava-settings: one TOML file a person can read and edit
ctrueden Sep 19, 2026
7f4e5fa
Shorten submodule folder names
ctrueden Sep 20, 2026
680d702
Make Context.doDispose() less deadlock-prone
ctrueden Sep 25, 2026
a641987
Migrate incarnational versioning writeup to here
ctrueden Oct 26, 2026
e625d35
README: fix build badge
ctrueden Oct 26, 2026
ee70467
Fix wrong suggested scijava-ops-indexer version
ctrueden Oct 26, 2026
a3f8e24
Pin the migration plan's scijava-persist version
ctrueden Oct 26, 2026
289a91c
Fix javadoc errors
ctrueden Oct 26, 2026
e197fad
Make DiscoveryLazinessTest independent of test order
ctrueden Oct 28, 2026
ba91881
Address Copilot review feedback
ctrueden Oct 28, 2026
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Pin every consumed SciJava artifact version 
Six components resolved released 1.0.0 artifacts instead of the reactor's
snapshots, because these modules inherit from pom-scijava rather than
this repository's aggregator POM: an absent version property does not
fail, it silently falls back to the last released version in
pom-scijava's dependency management.

scijava-legacy, for instance, pulled released scijava-meta and
scijava-struct 1.0.0, whose classes reference org.scijava.common3
interfaces. That only surfaces when an API changes, as a
NoClassDefFoundError far from its cause.

Also defines scijava-priority.version in scijava-discovery, which
referenced the property without declaring it.

Audited with dependency:list against the reactor versions; zero
mismatches remain. Nothing enforces this convention -- an enforcer rule
would be worth adding.

Co-Authored-By: Claude Opus 5 <[email protected]>
Claude-Session: https://claude.ai/code/session_013gJpzGd3ksbME4CN6Tu2ni
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@ctrueden @claude
ctrueden and claude committed Oct 28, 2026
commit 4b8feffdff2e0a1d37ff2c7104212f8a30086bf7

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42 changes: 0 additions & 42 deletions 42 scijava-common3/src/main/java/org/scijava/common3/GenericTyped.java
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41 changes: 0 additions & 41 deletions 41 scijava-common3/src/main/java/org/scijava/common3/Versioned.java
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1 change: 1 addition & 0 deletions 1 scijava-discovery-test/pom.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -92,6 +92,7 @@
<!-- Note: These versions must match across all component POMs! -->
<scijava-discovery.version>1.0.1-SNAPSHOT</scijava-discovery.version>
<scijava-ops-spi.version>1.0.1-SNAPSHOT</scijava-ops-spi.version>
<scijava-priority.version>1.0.1-SNAPSHOT</scijava-priority.version>
</properties>

<dependencies>
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3 changes: 3 additions & 0 deletions 3 scijava-discovery/pom.xml
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Expand Up @@ -84,6 +84,9 @@

<license.licenseName>bsd_2</license.licenseName>
<license.copyrightOwners>SciJava developers.</license.copyrightOwners>

<!-- Note: These versions must match across all component POMs! -->
<scijava-priority.version>1.0.1-SNAPSHOT</scijava-priority.version>
</properties>

<dependencies>
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4 changes: 4 additions & 0 deletions 4 scijava-legacy/pom.xml
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Expand Up @@ -85,13 +85,17 @@
<license.copyrightOwners>SciJava developers.</license.copyrightOwners>

<!-- Note: These versions must match across all component POMs! -->
<scijava-collections.version>1.0.1-SNAPSHOT</scijava-collections.version>
<scijava-common3.version>1.0.1-SNAPSHOT</scijava-common3.version>
<scijava-discovery.version>1.0.1-SNAPSHOT</scijava-discovery.version>
<scijava-function.version>1.0.1-SNAPSHOT</scijava-function.version>
<scijava-meta.version>1.0.1-SNAPSHOT</scijava-meta.version>
<scijava-ops-api.version>1.0.1-SNAPSHOT</scijava-ops-api.version>
<scijava-ops-engine.version>1.0.1-SNAPSHOT</scijava-ops-engine.version>
<scijava-ops-spi.version>1.0.1-SNAPSHOT</scijava-ops-spi.version>
<scijava-priority.version>1.0.1-SNAPSHOT</scijava-priority.version>
<scijava-progress.version>1.0.1-SNAPSHOT</scijava-progress.version>
<scijava-struct.version>1.0.1-SNAPSHOT</scijava-struct.version>
<scijava-types.version>1.0.1-SNAPSHOT</scijava-types.version>
</properties>

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5 changes: 5 additions & 0 deletions 5 scijava-ops-flim/pom.xml
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Expand Up @@ -96,15 +96,20 @@
<license.copyrightOwners>SciJava developers.</license.copyrightOwners>

<!-- Note: These versions must match across all component POMs! -->
<scijava-collections.version>1.0.1-SNAPSHOT</scijava-collections.version>
<scijava-common3.version>1.0.1-SNAPSHOT</scijava-common3.version>
<scijava-concurrent.version>1.0.1-SNAPSHOT</scijava-concurrent.version>
<scijava-discovery.version>1.0.1-SNAPSHOT</scijava-discovery.version>
<scijava-function.version>1.0.1-SNAPSHOT</scijava-function.version>
<scijava-meta.version>1.0.1-SNAPSHOT</scijava-meta.version>
<scijava-ops-api.version>1.0.1-SNAPSHOT</scijava-ops-api.version>
<scijava-ops-engine.version>1.0.1-SNAPSHOT</scijava-ops-engine.version>
<scijava-ops-image.version>2.0.0-SNAPSHOT</scijava-ops-image.version>
<scijava-ops-indexer.version>1.0.1-SNAPSHOT</scijava-ops-indexer.version>
<scijava-ops-spi.version>1.0.1-SNAPSHOT</scijava-ops-spi.version>
<scijava-priority.version>1.0.1-SNAPSHOT</scijava-priority.version>
<scijava-progress.version>1.0.1-SNAPSHOT</scijava-progress.version>
<scijava-struct.version>1.0.1-SNAPSHOT</scijava-struct.version>
<scijava-taglets.version>1.0.1-SNAPSHOT</scijava-taglets.version>
<scijava-types.version>1.0.1-SNAPSHOT</scijava-types.version>

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1 change: 1 addition & 0 deletions 1 scijava-ops-image/pom.xml
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Expand Up @@ -258,6 +258,7 @@
<scijava-ops-spi.version>1.0.1-SNAPSHOT</scijava-ops-spi.version>
<scijava-priority.version>1.0.1-SNAPSHOT</scijava-priority.version>
<scijava-progress.version>1.0.1-SNAPSHOT</scijava-progress.version>
<scijava-struct.version>1.0.1-SNAPSHOT</scijava-struct.version>
<scijava-taglets.version>1.0.1-SNAPSHOT</scijava-taglets.version>
<scijava-testutil.version>1.0.1-SNAPSHOT</scijava-testutil.version>
<scijava-types.version>1.0.1-SNAPSHOT</scijava-types.version>
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7 changes: 7 additions & 0 deletions 7 scijava-ops-opencv/pom.xml
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Expand Up @@ -100,13 +100,20 @@
<scijava.surefire.args>--add-reads org.scijava.ops.opencv=org.scijava.ops.api,net.imglib2</scijava.surefire.args>

<!-- Note: These versions must match across all component POMs! -->
<scijava-collections.version>1.0.1-SNAPSHOT</scijava-collections.version>
<scijava-common3.version>1.0.1-SNAPSHOT</scijava-common3.version>
<scijava-concurrent.version>1.0.1-SNAPSHOT</scijava-concurrent.version>
<scijava-discovery.version>1.0.1-SNAPSHOT</scijava-discovery.version>
<scijava-function.version>1.0.1-SNAPSHOT</scijava-function.version>
<scijava-meta.version>1.0.1-SNAPSHOT</scijava-meta.version>
<scijava-ops-api.version>1.0.1-SNAPSHOT</scijava-ops-api.version>
<scijava-ops-engine.version>1.0.1-SNAPSHOT</scijava-ops-engine.version>
<scijava-ops-image.version>2.0.0-SNAPSHOT</scijava-ops-image.version>
<scijava-ops-indexer.version>1.0.1-SNAPSHOT</scijava-ops-indexer.version>
<scijava-ops-spi.version>1.0.1-SNAPSHOT</scijava-ops-spi.version>
<scijava-priority.version>1.0.1-SNAPSHOT</scijava-priority.version>
<scijava-progress.version>1.0.1-SNAPSHOT</scijava-progress.version>
<scijava-struct.version>1.0.1-SNAPSHOT</scijava-struct.version>
<scijava-taglets.version>1.0.1-SNAPSHOT</scijava-taglets.version>
<scijava-types.version>1.0.1-SNAPSHOT</scijava-types.version>

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5 changes: 5 additions & 0 deletions 5 scijava-ops-tutorial/pom.xml
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Expand Up @@ -100,16 +100,21 @@
<maven.install.skip>true</maven.install.skip>

<!-- Note: These versions must match across all component POMs! -->
<scijava-collections.version>1.0.1-SNAPSHOT</scijava-collections.version>
<scijava-common3.version>1.0.1-SNAPSHOT</scijava-common3.version>
<scijava-concurrent.version>1.0.1-SNAPSHOT</scijava-concurrent.version>
<scijava-discovery.version>1.0.1-SNAPSHOT</scijava-discovery.version>
<scijava-function.version>1.0.1-SNAPSHOT</scijava-function.version>
<scijava-indexer.version>1.0.1-SNAPSHOT</scijava-indexer.version>
<scijava-meta.version>1.0.1-SNAPSHOT</scijava-meta.version>
<scijava-ops-api.version>1.0.1-SNAPSHOT</scijava-ops-api.version>
<scijava-ops-engine.version>1.0.1-SNAPSHOT</scijava-ops-engine.version>
<scijava-ops-image.version>2.0.0-SNAPSHOT</scijava-ops-image.version>
<scijava-ops-indexer.version>1.0.1-SNAPSHOT</scijava-ops-indexer.version>
<scijava-ops-spi.version>1.0.1-SNAPSHOT</scijava-ops-spi.version>
<scijava-priority.version>1.0.1-SNAPSHOT</scijava-priority.version>
<scijava-progress.version>1.0.1-SNAPSHOT</scijava-progress.version>
<scijava-struct.version>1.0.1-SNAPSHOT</scijava-struct.version>
<scijava-taglets.version>1.0.1-SNAPSHOT</scijava-taglets.version>
<scijava-types.version>1.0.1-SNAPSHOT</scijava-types.version>

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