{vis}[system/system] Fiji v20260514-1817 w/ Java 21

[MaximeVdB]

(created using eb --new-pr)

I dropped the --default-gc --java-home "$EBROOTJAVA/lib/server/" Fiji options, since this release does not come with a ImageJ-linux64 executable and the options don't seem to be needed when using the included fiji executable. I now see though that Fiji/2.14.0-Java-11 also includes such a fiji executable, so at this point I don't really see why Fiji-2.14.0-Java-11.eb bothers with ImageJ-linux64 instead of fiji.

[github-actions]

Updated software Fiji-20260514-1817-Java-21.eb

Diff against Fiji-2.14.0-Java-11.eb

easybuild/easyconfigs/f/Fiji/Fiji-2.14.0-Java-11.eb

diff --git a/easybuild/easyconfigs/f/Fiji/Fiji-2.14.0-Java-11.eb b/easybuild/easyconfigs/f/Fiji/Fiji-20260514-1817-Java-21.eb
index 6e3f4cddae..639242fc74 100644
--- a/easybuild/easyconfigs/f/Fiji/Fiji-2.14.0-Java-11.eb
+++ b/easybuild/easyconfigs/f/Fiji/Fiji-20260514-1817-Java-21.eb
@@ -1,52 +1,52 @@
 easyblock = 'PackedBinary'
 
 name = 'Fiji'
-version = '2.14.0'
+version = '20260514-1817'
 versionsuffix = '-Java-%(javaver)s'
 
 homepage = 'https://fiji.sc/'
 description = """Fiji is an image processing package—a 'batteries-included' distribution of
  ImageJ, bundling a lot of plugins which facilitate scientific image analysis.
-This release is based on ImageJ-2.1.0 and Fiji-2.1.1"""
+"""
 
 toolchain = SYSTEM
 
-source_urls = ['https://downloads.imagej.net/fiji/releases/%(version)s']
-sources = ['%(namelower)s-%(version)s-nojre.zip']
-checksums = ['1dcf6efd7a2c99b70ab921bea3b9e7c74ef99acf35b9857199de7f9c424187db']
+source_urls = ['https://downloads.imagej.net/fiji/archive/latest/%(version)s']
+sources = [{
+    'download_filename': '%(namelower)s-latest-portable-nojava.zip',
+    'filename': '%(namelower)s-%(version)s-portable-nojava.zip',
+}]
+checksums = ['526bb2461a98b74ab7d277a69ff65886672d3eeafc8273ef18145e14803c7287']
 
-dependencies = [('Java', '11', '', SYSTEM)]
+dependencies = [('Java', '21', '', SYSTEM)]
 
 postinstallcmds = [
-    # Remove binaries for other platforms
-    'rm %(installdir)s/{ImageJ-win32.exe,ImageJ-win64.exe}',
     # Enable any update site (edit existing site with same parameters to enable it)
     # Full list at https://imagej.github.io/list-of-update-sites/
-    '%(installdir)s/ImageJ-linux64 --default-gc --java-home "$EBROOTJAVA/lib/server/" --headless'
+    '%(installdir)s/fiji --headless'
     ' --update edit-update-site "ImageScience" https://sites.imagej.net/ImageScience/',
-    '%(installdir)s/ImageJ-linux64 --default-gc --java-home "$EBROOTJAVA/lib/server/" --headless'
+    '%(installdir)s/fiji --headless'
     ' --update edit-update-site "3D ImageJ Suite" https://sites.imagej.net/Tboudier/',
-    '%(installdir)s/ImageJ-linux64 --default-gc --java-home "$EBROOTJAVA/lib/server/" --headless'
+    '%(installdir)s/fiji --headless'
     ' --update edit-update-site "ilastik" https://sites.imagej.net/Ilastik/',
     # Add a new update site
-    # '%(installdir)s/ImageJ-linux64 --headless --update add-update-site "New Name"'
+    # '%(installdir)s/fiji --headless --update add-update-site "New Name"'
     # ' https://site.url/NewName/',
     # Update the installation
-    '%(installdir)s/ImageJ-linux64 --default-gc --java-home "$EBROOTJAVA/lib/server/" --headless --update update',
+    '%(installdir)s/fiji --headless --update update',
+    # Remove binaries for other platforms
+    'rm %(installdir)s/{fiji-windows-x64.exe,fiji-windows-arm64.exe}',
 ]
 
 sanity_check_paths = {
-    'files': ['ImageJ-linux64'],
+    'files': ['fiji'],
     'dirs': [],
 }
 
 modloadmsg = """
 Additional plugins can be installed in your $HOME/.plugins folder or requested to user support
-Use ImageJ/Fiji in headless mode in your scripts with the command `ImageJ-linux64 --headless`
+Use ImageJ/Fiji in headless mode in your scripts with the command `fiji --headless`
 More information at https://imagej.net/Headless
-Also for Fiji 2.14.0 the arguments `--default-gc --java-home "$EBROOTJAVA/lib/server/"`
-should always be used when running `ImageJ-linux64` commands to avoid errors like:
-`Could not load Java library` and `Unrecognized option: -Xincgc`.
 """
 
 moduleclass = 'vis'

Diff against Fiji-2.9.0-Java-8.eb

easybuild/easyconfigs/f/Fiji/Fiji-2.9.0-Java-8.eb

diff --git a/easybuild/easyconfigs/f/Fiji/Fiji-2.9.0-Java-8.eb b/easybuild/easyconfigs/f/Fiji/Fiji-20260514-1817-Java-21.eb
index a025352372..639242fc74 100644
--- a/easybuild/easyconfigs/f/Fiji/Fiji-2.9.0-Java-8.eb
+++ b/easybuild/easyconfigs/f/Fiji/Fiji-20260514-1817-Java-21.eb
@@ -1,48 +1,51 @@
 easyblock = 'PackedBinary'
 
 name = 'Fiji'
-version = '2.9.0'
+version = '20260514-1817'
 versionsuffix = '-Java-%(javaver)s'
 
-homepage = 'https://fiji.sc'
+homepage = 'https://fiji.sc/'
 description = """Fiji is an image processing package—a 'batteries-included' distribution of
  ImageJ, bundling a lot of plugins which facilitate scientific image analysis.
-This release is based on ImageJ-2.1.0 and Fiji-2.1.1"""
+"""
 
 toolchain = SYSTEM
 
-source_urls = ['https://downloads.imagej.net/fiji/releases/%(version)s/']
-sources = ['fiji-%(version)s-nojre.zip']
-checksums = ['970fb80cf2a4fe8bfcecc2cc9a8617b9ab28f19fbe229ea6ae2f7f42674c8a42']
+source_urls = ['https://downloads.imagej.net/fiji/archive/latest/%(version)s']
+sources = [{
+    'download_filename': '%(namelower)s-latest-portable-nojava.zip',
+    'filename': '%(namelower)s-%(version)s-portable-nojava.zip',
+}]
+checksums = ['526bb2461a98b74ab7d277a69ff65886672d3eeafc8273ef18145e14803c7287']
 
-dependencies = [('Java', '8', '', SYSTEM)]
+dependencies = [('Java', '21', '', SYSTEM)]
 
 postinstallcmds = [
-    # Remove binaries for other platforms
-    'rm %(installdir)s/{ImageJ-win32.exe,ImageJ-win64.exe}',
     # Enable any update site (edit existing site with same parameters to enable it)
     # Full list at https://imagej.github.io/list-of-update-sites/
-    '%(installdir)s/ImageJ-linux64 --headless --update edit-update-site "ImageScience"'
-    ' https://sites.imagej.net/ImageScience/',
-    '%(installdir)s/ImageJ-linux64 --headless --update edit-update-site "3D ImageJ Suite"'
-    ' https://sites.imagej.net/Tboudier/',
-    '%(installdir)s/ImageJ-linux64 --headless --update edit-update-site "ilastik"'
-    ' https://sites.imagej.net/Ilastik/',
+    '%(installdir)s/fiji --headless'
+    ' --update edit-update-site "ImageScience" https://sites.imagej.net/ImageScience/',
+    '%(installdir)s/fiji --headless'
+    ' --update edit-update-site "3D ImageJ Suite" https://sites.imagej.net/Tboudier/',
+    '%(installdir)s/fiji --headless'
+    ' --update edit-update-site "ilastik" https://sites.imagej.net/Ilastik/',
     # Add a new update site
-    # '%(installdir)s/ImageJ-linux64 --headless --update add-update-site "New Name"'
+    # '%(installdir)s/fiji --headless --update add-update-site "New Name"'
     # ' https://site.url/NewName/',
     # Update the installation
-    '%(installdir)s/ImageJ-linux64 --headless --update update',
+    '%(installdir)s/fiji --headless --update update',
+    # Remove binaries for other platforms
+    'rm %(installdir)s/{fiji-windows-x64.exe,fiji-windows-arm64.exe}',
 ]
 
 sanity_check_paths = {
-    'files': ['ImageJ-linux64'],
+    'files': ['fiji'],
     'dirs': [],
 }
 
 modloadmsg = """
 Additional plugins can be installed in your $HOME/.plugins folder or requested to user support
-Use ImageJ/Fiji in headless mode in your scripts with the command `ImageJ-linux64 --headless`
+Use ImageJ/Fiji in headless mode in your scripts with the command `fiji --headless`
 More information at https://imagej.net/Headless
 """