build.gradle

buildscript {
    ext.kotlin_version = '1.2.71'

    repositories {
        jcenter()
    }

    dependencies {
        classpath "org.jetbrains.kotlin:kotlin-gradle-plugin:$kotlin_version"
        classpath "org.jetbrains.dokka:dokka-gradle-plugin:0.9.10"
    }
}

plugins {
    id 'com.jfrog.bintray' version '1.8.4'
    id 'java-library'
    id 'maven-publish'
}

apply plugin: 'kotlin'
apply plugin: 'maven-publish'
apply plugin: 'org.jetbrains.dokka'

sourceCompatibility = 1.8
targetCompatibility = sourceCompatibility
compileKotlin { kotlinOptions.jvmTarget = sourceCompatibility }
compileTestKotlin { kotlinOptions.jvmTarget = sourceCompatibility }

repositories {
    jcenter()
}

dependencies {
    // Logging dependencies
    compile("ch.qos.logback:logback-classic:1.2.3")
    compile("ch.qos.logback:logback-core:1.2.3")
    compile "org.slf4j:slf4j-api:1.7.25"

    compile 'com.google.guava:guava:29.0-jre'
    compile 'net.sf.trove4j:trove4j:3.0.3'
    compile 'org.apache.commons:commons-math3:3.6.1'
    compile 'org.iq80.snappy:snappy:0.4'
    compile 'com.indeed:util-mmap:1.0.35'
    compile 'com.github.samtools:htsjdk:2.10.1'
    compile "org.jetbrains.kotlin:kotlin-stdlib:$kotlin_version"

    testCompile 'junit:junit:4.13.1'
    testCompile "org.jetbrains.kotlin:kotlin-test:$kotlin_version"
}

dokka {
    linkMapping {
        dir = 'src/main/kotlin'
        url = "https://github.com/JetBrains-Research/big/blob/${project.version}/src/main/kotlin"
        suffix = '#L'
    }
}

test {
    // Seems on Windows default heap size is about 256m
    // and that is why tests fails with java heap size OOM
    maxHeapSize = "1024m"
}

task sourcesJar(type: Jar) {
    classifier = 'sources'
    from sourceSets.main.allSource
}

artifacts {
    archives sourcesJar
}

publishing {
    group = groupId
    version = project.version

    publications {
        mavenJava(MavenPublication) {
            from components.java

            artifact sourcesJar
        }
    }

   repositories {
     maven {
       name 'nexus-thirdparty'
       url 'http://nexus.dote.ru/nexus/content/repositories/thirdparty/'
       credentials {
        username = nexusUser
        password = nexusPassword
      }
     }
   }
}

bintray {
    user = project.hasProperty('bintrayUser') ? project.bintrayUser : System.getenv('BINTRAY_USER')
    key = project.hasProperty('bintrayKey') ? project.bintrayKey : System.getenv('BINTRAY_KEY')
    publications = ['mavenJava']
    pkg {
        repo = 'maven'
        name = 'big'
        userOrg = 'jetbrains-research'
        licenses = ['MIT']
        version {
            name = project.version.toString()
        }
    }
}

task wrapper(type: Wrapper) {
    gradleVersion = '2.12'
}

task copyDependencies(type: Copy) {
  from configurations.default
  into 'dependencies'
}