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Add details of installing on Mac OS X Arm64

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Jarek Sacha 2023-06-01 18:20:41 -04:00
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ReadMe.md
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@ -8,17 +8,19 @@ IJP ImageJ Launcher is a clean implementation on the core function of starting [
**Contents**
<!-- TOC -->
* [Why Another ImageJ Launcher](#why-another-imagej-launcher)
* [Features [work in progress]](#features-work-in-progress)
* [Full list of command line options](#full-list-of-command-line-options)
* [Why Another ImageJ Launcher?](#why-another-imagej-launcher)
* [Features](#features)
* [Full List of Command Line Options](#full-list-of-command-line-options)
* [Installation](#installation)
* [Example of Installing Fiji with the IJP ImageJ Launcher on Mac OS X Arm64](#example-of-installing-fiji-with-the-ijp-imagej-launcher-on-mac-os-x-arm64)
* [Troubleshooting](#troubleshooting)
* [Developer Setup](#developer-setup)
<!-- TOC -->
Why Another ImageJ Launcher
---------------------------
Why Another ImageJ Launcher?
----------------------------
I needed to use Fji with the current versions of Java, version 11 and newer.
The original [ImageJ Launcher] works with Java 8, but not that well with the current versions,
in particular not well on Mac with Arm64 processors (Apple Silicon).
@ -47,7 +49,8 @@ Features
* Determines available `imagej-launcher*.jar`
* Performs updates pending after the last time ImageJ was closed
### Full list of command line options
Full List of Command Line Options
---------------------------------
```
-h, --help prints this usage text
@ -63,79 +66,96 @@ Installation
------------
The IJP ImageJ Launcher executables will be available on the [Releases] page.
Example of Installing Fiji with the IJP ImageJ Launcher on Mac OS X Arm64
-------------------------------------------------------------------------
### Example of Installing Fiji with the IJP ImageJ Launcher on Mac OS X Arm64
#### 1. Download FIJI without JRE
This example will show how to:
* Download FIJI and unzip installation.
* Download and install JVM for it.
* Download the IJP ImageJ Launcher and use it to start Fiji
**1. Download FIJI without JRE**
Go to https://fiji.sc/ and select "Download the no-JRE version".
That should het you file called `fiji-nojre.zip`
That should get you file called `fiji-nojre.zip`
#### 2. Unzip the `fiji-nojre.zip` in the directory of choice
**2. Unzip the `fiji-nojre.zip` in a folder of choice**
In Mac OS X, if you double-click on the file `fiji-nojre.zip`
You should get `Fiji.app` click and select "show Content"
You should get new app folder called `Fiji.app`.
"Right-click" to show a popup menu and select "Show Package Contents" to see what is inside the `Fiji.app` folder.
Inside you should see folders and files like "Contents", "db.xml.gz", "ImageJ-linux64", ...
#### 3. Create place for Java (JRE)
**3. Create place for Java (JRE)**
Inside `Fiji.app` create directory `java`.
Next to directories that are already there, like `Contents`, `images`, `jars`, ...
Inside the `Fiji.app` folder create a new folder called `java`.
#### 4. Download Java JRE or JDK,
**4. Download Java JRE or JDK**
In browser open https://adoptium.net/temurin/releases/
Select:
* operating system: `macOS`
* architecture: `aarch64` also know as Apple Silicon or Arm64
* package: `jre` (`jdk` is fine too, is larger supports Java compilation)
* version: `11` (`17` will work too, but you will not have JavaScript available, if you use it)
* architecture: `aarch64` also known as Apple Silicon or Arm64
* package: `jre` (`jdk` is fine too, is larger and supports Java compilation)
* version: `11` (`17` will work too, but you will not have JavaScript available, if you want to use it)
Click on `tar.gz` button and download to the `java` directory you created earlier.
Click on `tar.gz` button to download and save to the `java` directory you created earlier.
You should have file like `OpenJDK11U-jre_x64_windows_hotspot_11.0.19_7.tar.gz`.
#### 5. Uncompress into the `java` directory
**5. Uncompress into the `java` director**
That will create directory like `jdk-11.0.19+7-jre`
That will create directory like `jdk-11.0.19+7-jre`.
This is the Java VM that IJP ImageJ Launcher will use to start Fiji.
#### 6. Download IJP ImageJ Launcher to Fiji.app directory
**6. Download the IJP ImageJ Launcher to the Fiji.app directory**
Go to [Releases] and download `???` and `???.???`
Go to [Releases] and download "IJP-ImageJ-Launcher-0.1.0-macosx-arm64"
and "IJP-ImageJ-Launcher-0.1.0-macosx-arm64.command"
#### 7. Start ImageJ
The "*.command" file is a helper that can be used to launch Fiji without using command prompt.
Future versions of the IJP Launcher, after v.0.1.0, may eliminate the need for using this file.
In Fiji.app double-click on `???.???` (note the extension ???) that should start FIJI.
**7. Start ImageJ**
You can also create an alis on the desktop to avoid navigating to Fiji.app directory each time.
Press ??? and ??? and drag `???.???` to the Desktop.
It will create an alias.
Now you can double-click on the alias `???.???` on the Desktop to start Fiji.
In the `Fiji.app` folder double-click on `IJP-ImageL-Launcher-0.1.0-macosx-arm64.command` file (note the extension "*
.command") that should start Fiji. YOu may need to open Settings and allow the IJP ImageJ Launcher to run.
If you have problems installing, please report in [Discussions]
You can also create an alis on the desktop to avoid navigating to the `Fiji.app` folder each time.
Using Finder, press `Option`+`Command` and drag the *.command file to the Desktop.
The original *.command file will stay were it is and a new icon/alias (wth a little arrow at the bottom) will be created
on the Desktop.
Now you can double-click on the new alias on the Desktop to start Fiji.
YOu can rename the Desktop alias to whatever you like, for instance `Fiji`, but do not change names of the downloaded
files, otherwise the alias (and *.command) may no longer work, and you will need to use terminal to start the launcher.
Troubleshooting
---------------
If you have problems installing, please report in [Discussions] or [Image.sc Forum]
1. Open command prompt (terminal).
2. Navigate to `Fiji.app` directory
3. Run IJP ImageJ Launch typing: `./ijp-imagej-launcher --debug`
### Troubleshooting
You should see diagnostic information about how `ijp-imagej-launcher` is attempting to start Fiji.
The error messages shoudl help you to address the issue.
Please use [Discussions] if you have additional questions
You can start the IJP Image Launcher from the terminal and see diagnostic printouts that may help troubleshoot potential
issues.
1. Open the terminal (command prompt).
2. Navigate to `Fiji.app` directory, for instance `cd ~/Download/Fiji.app`
3. Run IJP ImageJ Launch typing: `./IJP-ImageJ-Launcher-0.1.0-macosx-arm64 --debug`
You should see diagnostic information about how the IJP ImageJ Launcher is attempting to start Fiji.
The error messages should help you to address the issue.
Please use [Discussions] or [Image.sc Forum] if you have additional questions.
Developer Setup
---------------
Information here is only applicable if you want to rebuild from sources.
Setup Scala Native dependencies following instructions at:https://scala-native.org/en/v0.4.12/user/setup.html
In brief, you will need the following installed: JDK, SBT, and LLVM/CLang.
The IJP ImageJ Launcher is written mostly in [Scala].
With about 10 lines of C code.
Native binaries are created with help from [Scala Native].
To rebuild the IJP ImageJ Launcher from sources,
you need to setup Scala Native dependencies following instructions at [Scala Native].
In brief, you will need to install the following: JDK, SBT, and LLVM/CLang.
Details depend on OS.
On Windows you will also need Visual Studio 2019 (the Community Editions is sufficient).
Alternatively on Windows, you can build using WSL Linux prompt, in that case, follow Linux installation instructions.
This should work with JDK 8 or newer, including the latest JDK 20.
After requirements are installed, you should be able to build and run the launcher using command:
```shell
@ -150,12 +170,20 @@ sbt "run --help"
Notice the use of quotes.
[//]: # (Links)
[Discussions]: https://github.com/ij-plugins/ijp-imagej-launcher/discussions
[Fiji]: https://imagej.net/software/fiji/
[ImageJ 2]: https://imagej.net/software/imagej2/
[Image.sc Forum]: https://forum.image.sc/tags/c/usage-issues/7/fiji
[ImageJ 2]: https://imagej.net/software/imag
[ImageJ Launcher]: https://imagej.net/learn/launcher
[ImageJ Launcher source]: https://github.com/imagej/imagej-launcher/
[Releases]: https://github.com/ij-plugins/ijp-imagej-launcher/releases
[Scala]: https://www.scala-lang.org/
[Scala Native]: https://scala-native.org/en/stable/