Jabref: Update to 5.15 along with packaging fixes

[A108384]

Summary

• Update from 5.5 to 5.15 changelogs

• Add homepage to package.yml

• Update to openjdk-21

• Include new MAINTAINERS.md

• Include monitoring.yml

• Include appstream metainfo

• Resolves #3089

• Resolves #2642

• Related to #1389

Test Plan

• Rebuild package and install successfully
• Run application, creating, modifying, and reloading application

Checklist

• Package was built and tested against unstable

[EbonJaeger]

This looks like it's including a bundled version of Java in the package. I don't think that's what we want to do.

[A108384]

Yes. I think you are right. I see that now. i'll see what I can do.

[malfisya]

I couldn't get it to build on my system.

Warning] ypkg-build should be run via fakeroot, not as real root user
[Info] Building jabref-5.15
[Build] Building native package
[Source] Extracting source
[Build] Running step: build
[Build] Enabling ccache
[Build] Enabling sccache
+ cd /home/build/YPKG/root/jabref/build/jabref-5.15
+ export 'CFLAGS=-mtune=generic -march=x86-64 -g2 -O2 -pipe -fPIC -fno-plt -Wformat -Wformat-security -D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=32 -fasynchronous-unwind-tables -ftree-vectorize -feliminate-unused-debug-types -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -Wall -Wno-error -Wp,-D_REENTRANT'
+ CFLAGS='-mtune=generic -march=x86-64 -g2 -O2 -pipe -fPIC -fno-plt -Wformat -Wformat-security -D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=32 -fasynchronous-unwind-tables -ftree-vectorize -feliminate-unused-debug-types -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -Wall -Wno-error -Wp,-D_REENTRANT'
+ export 'CXXFLAGS=-mtune=generic -march=x86-64 -g2 -O2 -pipe -fPIC -fno-plt -D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=32 -fasynchronous-unwind-tables -ftree-vectorize -feliminate-unused-debug-types -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -Wall -Wno-error -Wp,-D_REENTRANT'
+ CXXFLAGS='-mtune=generic -march=x86-64 -g2 -O2 -pipe -fPIC -fno-plt -D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=32 -fasynchronous-unwind-tables -ftree-vectorize -feliminate-unused-debug-types -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -Wall -Wno-error -Wp,-D_REENTRANT'
+ export 'LDFLAGS=-Wl,--copy-dt-needed-entries -Wl,-O1 -Wl,-z,relro -Wl,-z,now -Wl,-z,max-page-size=0x1000 -Wl,-Bsymbolic-functions -Wl,--sort-common -Wl,-z,pack-relative-relocs'
+ LDFLAGS='-Wl,--copy-dt-needed-entries -Wl,-O1 -Wl,-z,relro -Wl,-z,now -Wl,-z,max-page-size=0x1000 -Wl,-Bsymbolic-functions -Wl,--sort-common -Wl,-z,pack-relative-relocs'
+ export RUSTFLAGS=-Cforce-frame-pointers
+ RUSTFLAGS=-Cforce-frame-pointers
+ export 'FFLAGS=-mtune=generic -march=x86-64 -g2 -O2 -pipe -fPIC -fno-plt -D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=32 -fasynchronous-unwind-tables -ftree-vectorize -feliminate-unused-debug-types -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -Wall -Wno-error -Wp,-D_REENTRANT'
+ FFLAGS='-mtune=generic -march=x86-64 -g2 -O2 -pipe -fPIC -fno-plt -D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=32 -fasynchronous-unwind-tables -ftree-vectorize -feliminate-unused-debug-types -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -Wall -Wno-error -Wp,-D_REENTRANT'
+ export 'FCFLAGS=-mtune=generic -march=x86-64 -g2 -O2 -pipe -fPIC -fno-plt -D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=32 -fasynchronous-unwind-tables -ftree-vectorize -feliminate-unused-debug-types -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -Wall -Wno-error -Wp,-D_REENTRANT'
+ FCFLAGS='-mtune=generic -march=x86-64 -g2 -O2 -pipe -fPIC -fno-plt -D_FORTIFY_SOURCE=2 -fstack-protector-strong --param=ssp-buffer-size=32 -fasynchronous-unwind-tables -ftree-vectorize -feliminate-unused-debug-types -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -Wall -Wno-error -Wp,-D_REENTRANT'
+ export PATH=/usr/lib64/ccache/bin:/usr/bin:/bin:/usr/sbin:/sbin
+ PATH=/usr/lib64/ccache/bin:/usr/bin:/bin:/usr/sbin:/sbin
+ export workdir=/home/build/YPKG/root/jabref/build/jabref-5.15
+ workdir=/home/build/YPKG/root/jabref/build/jabref-5.15
+ export package=jabref
+ package=jabref
+ export release=5
+ release=5
+ export version=5.15
+ version=5.15
+ export sources=/home/build/YPKG/sources
+ sources=/home/build/YPKG/sources
+ export pkgfiles=/home/build/work/files
+ pkgfiles=/home/build/work/files
+ export installdir=/home/build/YPKG/root/jabref/install
+ installdir=/home/build/YPKG/root/jabref/install
+ export PKG_ROOT_DIR=/home/build/YPKG/root/jabref
+ PKG_ROOT_DIR=/home/build/YPKG/root/jabref
+ export PKG_BUILD_DIR=/home/build/YPKG/root/jabref/build
+ PKG_BUILD_DIR=/home/build/YPKG/root/jabref/build
+ export LT_SYS_LIBRARY_PATH=/usr/lib64
+ LT_SYS_LIBRARY_PATH=/usr/lib64
+ export CC=x86_64-solus-linux-gcc
+ CC=x86_64-solus-linux-gcc
+ export CXX=x86_64-solus-linux-g++
+ CXX=x86_64-solus-linux-g++
+ export LD_AS_NEEDED=1
+ LD_AS_NEEDED=1
+ export RUSTC_WRAPPER=/usr/bin/sccache
+ RUSTC_WRAPPER=/usr/bin/sccache
+ export CCACHE_BASEDIR=/home/build/YPKG/root/jabref/build/jabref-5.15
+ CCACHE_BASEDIR=/home/build/YPKG/root/jabref/build/jabref-5.15
+ export SOURCE_DATE_EPOCH=1730246400
+ SOURCE_DATE_EPOCH=1730246400
+ unset DISPLAY SUDO_USER SUDO_GID SUDO_UID SUDO_COMMAND CDPATH
+ export JAVA_HOME=/usr/lib64/openjdk-21
+ JAVA_HOME=/usr/lib64/openjdk-21
+ export PATH=/usr/lib64/openjdk-21/bin:/usr/lib64/ccache/bin:/usr/bin:/bin:/usr/sbin:/sbin
+ PATH=/usr/lib64/openjdk-21/bin:/usr/lib64/ccache/bin:/usr/bin:/bin:/usr/sbin:/sbin
+ export GRADLE_USER_HOME=/home/build/YPKG/root/jabref/build/jabref-5.15
+ GRADLE_USER_HOME=/home/build/YPKG/root/jabref/build/jabref-5.15
+ gradle assemble --no-daemon --no-build-cache -PprojVersionInfo=5.15 -PprojVersion=5.15

Welcome to Gradle 8.10.2!

Here are the highlights of this release:
 - Support for Java 23
 - Faster configuration cache
 - Better configuration cache reports

For more details see https://docs.gradle.org/8.10.2/release-notes.html

To honour the JVM settings for this build a single-use Daemon process will be forked. For more on this, please refer to https://docs.gradle.org/8.10.2/userguide/gradle_daemon.html#sec:disabling_the_daemon in the Gradle documentation.
Daemon will be stopped at the end of the build 

FAILURE: Build failed with an exception.

* What went wrong:
A problem occurred configuring root project 'JabRef'.
> Could not resolve all artifacts for configuration ':classpath'.
   > Could not resolve com.github.koppor.gradle-modules-plugin:gradle-modules-plugin:jitpack-SNAPSHOT.
     Required by:
         root project : > com.github.koppor:gradle-modules-plugin:jitpack-SNAPSHOT:33f60fd812-1
      > Could not resolve com.github.koppor.gradle-modules-plugin:gradle-modules-plugin:jitpack-SNAPSHOT.
         > Could not get resource 'https://jitpack.io/com/github/koppor/gradle-modules-plugin/gradle-modules-plugin/jitpack-SNAPSHOT/gradle-modules-plugin-jitpack-33f60fd812-1.pom'.
            > Could not GET 'https://jitpack.io/com/github/koppor/gradle-modules-plugin/gradle-modules-plugin/jitpack-SNAPSHOT/gradle-modules-plugin-jitpack-33f60fd812-1.pom'.
               > Read timed out
> There are 6 more failures with identical causes.

* Try:
> Run with --stacktrace option to get the stack trace.
> Run with --info or --debug option to get more log output.
> Run with --scan to get full insights.
> Get more help at https://help.gradle.org.

BUILD FAILED in 3m 24s
2 actionable tasks: 2 executed
Command '['/bin/bash', '--norc', '--noprofile', '/tmp/ypkg-buildfp46itk8']' returned non-zero exit status 1.
[Build] build failed for jabref
 ✗  Failed to build packages err="Failed to start build of package, reason: exit status 1\n"
task: Failed to run task "build-local": exit status 1

[davidjharder]

Same here

[A108384]

It looks like that plugin longer is available. This no longer builds for me either. I have reached out to the JabRef team asking for assistance / clarification on this plugin.

--- 2 hours later ---
I did not make any changes but after failing many times the build has been successful several times.
I wonder if the developer adjusted one of the gradle plugins...

I don't know if this is a risky situation and I need to do more research on it.. or if it builds, it builds :)

In the meantime, could you please try again? It is working for me now with no changes and I have cleared the cache and rebuilt successfully a few times.

@davidjharder @malfisya

[davidjharder]

Still getting a timeout on https://jitpack.io/com/github/koppor/gradle-modules-plugin/gradle-modules-plugin/jitpack-SNAPSHOT/gradle-modules-plugin-jitpack-33f60fd812-1.pom

EDIT: Tried a wget and it worked eventually; took 2 minutes. Maybe timeout can be changed to ~5min.

[davidjharder]

Ok, it built for me. Something is janky with downloading that one file.
I added
-Dorg.gradle.internal.http.socketTimeout=60000 -Dorg.gradle.internal.http.connectionTimeout=60000
to the gradle line

[A108384]

I had more successful rebuilds last night and again this morning with no changes. (US ET)
Should I add the timeout parameters for a better chance of successful builds and resubmit the PR?
It has been working for me, but obviously is not consistent.

[malfisya]

It still keeps failing for me. The plugin is still the problem, maybe my location is the cause. So, I cannot verify the functionality of the package. If other staff can verify that jabref working properly, I will leave the review to them.

Cannot build this PR

[androidnisse]

Timed out for me as well. In Sweden.

[davidjharder]

@A108384 add the timeout flags and I'll give it a shot on the build server. Let's try it

[A108384]

@A108384 add the timeout flags and I'll give it a shot on the build server. Let's try it

I have finally updated the PR. It still failed to build a few times yesterday before it was successful. But then it has built successfully several times since.

I also found this except in the jitpack.io FAQ

How do I resolve Read timed out error in Gradle?

Since version 4.3 Gradle has reduced http timeouts which can cause downloads to time out when JitPack waits for a build to finish. To increase timeouts add these settings to your gradle.properties file:

systemProp.org.gradle.internal.http.connectionTimeout=180000
systemProp.org.gradle.internal.http.socketTimeout=180000

Therefore I used 180000 for the Timeout parameters.

done

[davidjharder]

Successful build!