[Java] Do not publish modules based on filenames

### Describe the bug, including details regarding any error messages, version, and platform.

Arrow Java should not publish modules based on filenames. Flatbuffers/Protobuf can probably be shaded to avoid this. We can potentially remove usage of jsr305 in favor of another library.

```
[WARNING] * Required filename-based automodules detected: [flatbuffers-java-24.3.25.jar, jsr305-3.0.2.jar, protobuf-java-3.25.1.jar, protobuf-java-util-3.25.1.jar]. Please don't publish this project to a public artifact repository! *
```

- [x] https://github.com/apache/arrow/issues/43396
- [x] https://github.com/apache/arrow/issues/43437
- [x] https://github.com/google/flatbuffers/issues/8348

### Component(s)

Java

首先检查 Java 发布配置，以及 flatbuffers、protobuf 和 jsr305 如何进入已发布的构件。使用项目的构建或发布命令重现 filename-based automodule warning。当已发布的模块不再依赖 filename-based automatic modules，同时保留所需功能时，即视为完成。

由索引模型根据 Issue 内容生成。