Gradle build failed: java.util.zip.ZipException: duplicate entry: org/apache/commons/io/CopyUtils.class

Question

When trying to run the app on my nexus 7, the gradle build fails every time and gives the same error:

> com.android.build.api.transform.TransformException:
java.util.zip.ZipException: duplicate entry:
org/apache/commons/io/CopyUtils.class

The error seems to indicate that CopyUtils.class from commons-io is being included twice in the build process.

The full log:

Information:Gradle tasks [:android:assembleDebug]

:android:preBuild UP-TO-DATE

:android:preDebugBuild UP-TO-DATE

:android:checkDebugManifest

:android:preReleaseBuild UP-TO-DATE

:android:prepareComAndroidSupportMultidex101Library UP-TO-DATE

:android:prepareDebugDependencies

:android:compileDebugAidl UP-TO-DATE

:android:compileDebugRenderscript UP-TO-DATE
:android:generateDebugBuildConfig UP-TO-DATE

:android:mergeDebugShaders UP-TO-DATE

:android:compileDebugShaders UP-TO-DATE

:android:generateDebugAssets UP-TO-DATE

:android:mergeDebugAssets UP-TO-DATE

:android:generateDebugResValues UP-TO-DATE


:android:generateDebugResources UP-TO-DATE

:android:mergeDebugResources UP-TO-DATE

:android:processDebugManifest UP-TO-DATE

:android:processDebugResources UP-TO-DATE

:android:generateDebugSources UP-TO-DATE

:android:incrementalDebugJavaCompilationSafeguard UP-TO-DATE

:android:compileDebugJavaWithJavac UP-TO-DATE

:android:compileDebugNdk UP-TO-DATE

:android:compileDebugSources UP-TO-DATE

:android:prePackageMarkerForDebug
:android:transformClassesWithJarMergingForDebug FAILED
Error:Execution failed for task 
':android:transformClassesWithJarMergingForDebug'.

> com.android.build.api.transform.TransformException: 
java.util.zip.ZipException: duplicate entry: 
org/apache/commons/io/CopyUtils.class

Information:BUILD FAILED

Information:Total time: 11.208 secs

Information:1 error

Information:0 warnings

Information:See complete output in console

Also my build.gradle:

apply plugin: 'android'

android {
    compileSdkVersion 19
    buildToolsVersion "19.1.0"


    defaultConfig {
        applicationId "org.wildstang.wildrank.android"
        minSdkVersion 14
        targetSdkVersion 19
        versionCode 1
        versionName "1.0"
        multiDexEnabled true
    }
    dexOptions {
        javaMaxHeapSize "4g"
    }

    compileOptions {
        sourceCompatibility JavaVersion.VERSION_1_7
        targetCompatibility JavaVersion.VERSION_1_7
    }

    buildTypes {
        release {
            minifyEnabled false
            proguardFiles getDefaultProguardFile('proguard-android.txt'), 'proguard-rules.pro'
        }
    }

    lintOptions {
        abortOnError false
    }
}

dependencies {
    compile 'com.android.support:support-v4:19.+'
    compile 'com.android.support:support-v13:19.+'
    compile 'de.congrace:exp4j:0.3.+'
    compile 'org.apache.commons:commons-io:1.3.+'
    compile fileTree(dir: 'libs', include: ['*.jar'])
}

I seem to now get

Error:(43, 0) Gradle DSL method not found: 'com.android.support:support-v4:24.1.1()' Possible causes:

The project 'wildrank-android-master' may be using a version of Gradle that does not contain the method. Open Gradle wrapper file

The build file may be missing a Gradle plugin. Apply Gradle plugin

My Gradle wrapper

Wed Jul 06 21:02:27 PDT 2016

distributionBase=GRADLE_USER_HOME distributionPath=wrapper/dists

zipStoreBase=GRADLE_USER_HOME

zipStorePath=wrapper/dists

distributionUrl=https://services.gradle.org/distributions/gradle-2.10-all.zip

My new gradle file

apply plugin: 'com.android.application' //IMPORTANT: 'com.android.application' not

android { compileSdkVersion 24 // compile sdk should always be latest buildToolsVersion "24.0.1" // Don't know if this matters

defaultConfig {
    applicationId "org.wildstang.wildrank.android"
    minSdkVersion 14
    targetSdkVersion 19 //Looks like this is a new app, why are you using 19 and not 24?
    versionCode 1
    versionName "1.0"
    multiDexEnabled true
}
dexOptions {
    javaMaxHeapSize "4g"
}

compileOptions {
    sourceCompatibility JavaVersion.VERSION_1_7
    targetCompatibility JavaVersion.VERSION_1_7
}

buildTypes {
    release {
        minifyEnabled false
        proguardFiles getDefaultProguardFile('proguard-android.txt'), 'proguard-rules.pro'
    }
}

lintOptions {
    abortOnError false
}

}

dependencies { compile fileTree(include: ['*.jar'], dir: 'libs') //IMPORTANT

//Ignore these, I don't think they are important for you, but I needed them to get my test project to compile
// These version numbers worked for me:
compile 'com.android.support:support-v4:24.1.1'{exclude group: 'org.apache.commons', module: 'commons-io' }
compile 'com.android.support:support-v13:24.1.1'{ exclude module: 'commons-io' }
compile 'de.congrace:exp4j:0.3.11'{ exclude module: 'commons-io' }
compile 'org.apache.commons:commons-io:1.3.2'{ exclude module: 'commons-io' }

}

Answer 1

There is an option to fix it on gradle dependency resolution level

configurations.all {
    resolutionStrategy.dependencySubstitution {
        substitute module('org.apache.commons:commons-io:1.3.2') with module('commons-io:commons-io:1.3.2')
    }
}

Reason of the conflict is that org.apache.commons:commons-io:1.3.2 was pushed by mistake https://stackoverflow.com/a/37421794/624706

You can see where dependency is coming from with

gradle :main:dependencyInsight --configuration compile --dependency commons-io

Answer 2

Please use the below code in build.gradle file.

configurations {
    all*.exclude group: 'org.apache.commons'
}

Enjoy!!!

Answer 3

Edit 2:

I created a fork of the project that compiles and runs on Android Studio 2.2 preview 7. You can also check out the diff if you don't want to redownload the project.

Edit:

Here is a build.gradle file that compiled for me. I've commented all the important changes:

apply plugin: 'com.android.application' //IMPORTANT: 'com.android.application' not 

android {
    compileSdkVersion 24 // compile sdk should always be latest
    buildToolsVersion "24.0.1" // Don't know if this matters


    defaultConfig {
        applicationId "org.wildstang.wildrank.android"
        minSdkVersion 14
        targetSdkVersion 19 //Looks like this is a new app, why are you using 19 and not 24?
        versionCode 1
        versionName "1.0"
        multiDexEnabled true
    }
    dexOptions {
        javaMaxHeapSize "4g"
    }

    compileOptions {
        sourceCompatibility JavaVersion.VERSION_1_7
        targetCompatibility JavaVersion.VERSION_1_7
    }

    buildTypes {
        release {
            minifyEnabled false
            proguardFiles getDefaultProguardFile('proguard-android.txt'), 'proguard-rules.pro'
        }
    }

    lintOptions {
        abortOnError false
    }
}

dependencies {
    compile fileTree(include: ['*.jar'], dir: 'libs') //IMPORTANT

    //Ignore these, I don't think they are important for you, but I needed them to get my test project to compile
    compile 'com.android.support:appcompat-v7:24.1.1'
    compile 'com.android.support.constraint:constraint-layout:1.0.0-alpha5'
    compile 'com.android.support:design:24.1.1'

    // These version numbers worked for me:
    compile 'com.android.support:support-v4:24.1.1'
    compile 'com.android.support:support-v13:24.1.1'
    compile 'de.congrace:exp4j:0.3.11'
    compile 'org.apache.commons:commons-io:1.3.2'
}

Try what Maxence Barroy said. If that doesn't work, check out this answer:

compile('com.example:some-dependency:4.2') {
    exclude module: 'commons-io'
}

Since I don't know what your build.gradle file looks like, I can't really help you, but check out this answer too. Also, make sure you have the latest version of Gradle 'com.android.tools.build:gradle:2.2.0-alpha6'