protege: init at 5.6.4

diff --git a/pom.xml b/pom.xml

index 839bed04..4cb5f392 100644

--- a/pom.xml

+++ b/pom.xml

@@ -358,6 +358,30 @@

 						<release>11</release>

 					</configuration>

 				</plugin>

+

+                                <plugin>

+					<groupId>org.apache.maven.plugins</groupId>

+					<artifactId>maven-install-plugin</artifactId>

+					<version>3.1.1</version>

+                                </plugin>

+

+                                <plugin>

+					<groupId>org.apache.maven.plugins</groupId>

+					<artifactId>maven-site-plugin</artifactId>

+					<version>3.12.1</version>

+                                </plugin>

+

+                                <plugin>

+					<groupId>org.apache.maven.plugins</groupId>

+					<artifactId>maven-deploy-plugin</artifactId>

+					<version>3.1.1</version>

+                                </plugin>

+

+                                <plugin>

+					<groupId>org.apache.maven.plugins</groupId>

+					<artifactId>maven-jar-plugin</artifactId>

+					<version>3.3.0</version>

+                                </plugin>

 				<plugin>

 					<groupId>org.apache.maven.plugins</groupId>

@@ -476,6 +494,7 @@

 								<requireMavenVersion>

 									<version>3.6.3</version>

 								</requireMavenVersion>

+                                                                <requirePluginVersions/>

 							</rules>

 						</configuration>

 					</execution>

{ lib

, fetchFromGitHub

, copyDesktopItems

, iconConvTools

, makeDesktopItem

, makeWrapper

, jdk11

, maven

}:

let

  mvn = maven.override { jdk = jdk11; };

in

mvn.buildMavenPackage rec {

  pname = "protege";

  version = "5.6.4";

  src = fetchFromGitHub {

    owner = "protegeproject";

    repo = "protege";

    rev = version;

    hash = "sha256-Q3MHa7nCeF31n7JPltcemFBc/sJwGA9Ev0ymjQhY/U0=";

  };

  mvnHash = "sha256-kemP2gDv1CYuaoK0fwzBxdLTusarPasf2jCDQj/HPYE=";

  patches = [

    # Pin built-in Maven plugins to avoid checksum variations on Maven updates

    ./enforce-plugin-versions.patch

    # Avoid building platform-dependent builds which embed their own JREs

    ./platform-independent-only.patch

  ];

  nativeBuildInputs = [

    copyDesktopItems

    iconConvTools

    jdk11

    makeWrapper

  ];

  installPhase = ''

    runHook preInstall

    mkdir -p $out/bin $out/share/protege

    # Copy the application directory whole into the output, as it is used by the

    # launcher script as a reference point to look for default configuration

    mv protege-desktop/target/protege-${version}-platform-independent/Protege-${version} $out/Protege

    # Place a wrapper for the launcher script into a default /bin location

    makeWrapper $out/Protege/run.sh $out/bin/protege \

      --set JAVA_HOME ${jdk11.home}

    # Link all jars from within the standard /share/protege directory

    ln -s -t $out/share/protege $out/Protege/bundles/*

    # Generate and copy icons to where they can be found

    icoFileToHiColorTheme $out/Protege/app/Protege.ico protege $out

    runHook postInstall

  '';

  desktopItems = [

    (makeDesktopItem {

      name = pname;

      desktopName = "Protege Desktop";

      genericName = "Ontology Editor";

      icon = "protege";

      comment = meta.description;

      categories = [ "Development" ];

      exec = "protege";

    })

  ];

  meta = {

    homepage = "https://protege.stanford.edu/";

    downloadPage = "https://protege.stanford.edu/software.php#desktop-protege";

    description = "A free and open-source OWL 2 ontology editor";

    longDescription = ''

      Protégé Desktop is a feature rich ontology editing environment with full

      support for the OWL 2 Web Ontology Language, and direct in-memory

      connections to description logic reasoners.

    '';

    maintainers = with lib.maintainers; [ nessdoor ];

    license = with lib.licenses; [ bsd2 ];

    # TODO Protege is able to run on Darwin as well, but I (@nessdoor) had no

    #      way of testing it nor any experience in packaging Darwin apps, so I

    #      will leave the task to someone who has the right tools and knowledge.

    platforms = lib.platforms.unix;

    mainProgram = "protege";

    sourceProvenance = with lib.sourceTypes; [ fromSource binaryBytecode ];

  };

}

diff --git a/protege-desktop/pom.xml b/protege-desktop/pom.xml

index 2f599708..60059308 100644

--- a/protege-desktop/pom.xml

+++ b/protege-desktop/pom.xml

@@ -110,9 +110,6 @@

 							</archiverConfig>

 							<descriptors>

 								<descriptor>src/main/assembly/protege-platform-independent.xml</descriptor>

-								<descriptor>src/main/assembly/protege-os-x.xml</descriptor>

-								<descriptor>src/main/assembly/protege-win.xml</descriptor>

-								<descriptor>src/main/assembly/protege-linux.xml</descriptor>

 							</descriptors>

 						</configuration>

 					</execution>

@@ -165,9 +162,6 @@

 									</archiverConfig>

 									<descriptors>

 										<descriptor>src/main/assembly/protege-platform-independent.xml</descriptor>

-										<descriptor>src/main/assembly/protege-os-x.xml</descriptor>

-										<descriptor>src/main/assembly/protege-win.xml</descriptor>

-										<descriptor>src/main/assembly/protege-linux.xml</descriptor>

 									</descriptors>

 								</configuration>

 							</execution>