After update of AS to 1.0, getting "method ID not in [0, 0xffff]: 65536" error in project

Question

I updated Android Studio to the latest version, and let it "fix the project" and the like - but now my project does not compile, gives me

 FAILED

FAILURE: Build failed with an exception.

* What went wrong:
Execution failed for task ':app:dexDebug'.
> com.android.ide.common.internal.LoggedErrorException: Failed to run command:
    D:\VGA\AndroidStudio\sdk\build-tools\21.1.1\dx.bat --dex --no-optimize --output D:\VGA\Projects\Sales-App\Android-Project\svn\android\app\build\intermediates\dex\debug --input-list=D:\VGA\Projects\Sales-App\Android-Project\svn\android\app\build\intermediates\tmp\dex\debug\inputList.txt
Error Code:
    2
Output:

    UNEXPECTED TOP-LEVEL EXCEPTION:
    com.android.dex.DexIndexOverflowException: method ID not in [0, 0xffff]: 65536
        at com.android.dx.merge.DexMerger$6.updateIndex(DexMerger.java:502)
        at com.android.dx.merge.DexMerger$IdMerger.mergeSorted(DexMerger.java:277)
        at com.android.dx.merge.DexMerger.mergeMethodIds(DexMerger.java:491)
        at com.android.dx.merge.DexMerger.mergeDexes(DexMerger.java:168)
        at com.android.dx.merge.DexMerger.merge(DexMerger.java:189)
        at com.android.dx.command.dexer.Main.mergeLibraryDexBuffers(Main.java:454)
        at com.android.dx.command.dexer.Main.runMonoDex(Main.java:302)
        at com.android.dx.command.dexer.Main.run(Main.java:245)
        at com.android.dx.command.dexer.Main.main(Main.java:214)
        at com.android.dx.command.Main.main(Main.java:106)

However, this isn't resolved by just multidexing, because when I added this:

defaultConfig {
    ...
    multiDexEnabled = true
}

This happens

D:\VGA\AndroidStudio\sdk\build-tools\21.1.1\dx.bat --dex --no-optimize --multi-dex --main-dex-list D:\VGA\Projects\Sales-App\Android-Project\svn\android\app\build\intermediates\multi-dex\debug\maindexlist.txt --output D:\VGA\Projects\Sales-App\Android-Project\svn\android\app\build\intermediates\dex\debug --input-list=D:\VGA\Projects\Sales-App\Android-Project\svn\android\app\build\intermediates\tmp\dex\debug\inputList.txt

Error Code: 3 Output:

UNEXPECTED TOP-LEVEL ERROR:
java.lang.OutOfMemoryError: GC overhead limit exceeded
    at com.android.dx.cf.code.ConcreteMethod.makeSourcePosistion(ConcreteMethod.java:254)
    at com.android.dx.cf.code.RopperMachine.run(RopperMachine.java:306)
    at com.android.dx.cf.code.Simulator$SimVisitor.visitLocal(Simulator.java:612)
    at com.android.dx.cf.code.BytecodeArray.parseInstruction(BytecodeArray.java:367)
    at com.android.dx.cf.code.Simulator.simulate(Simulator.java:94)
    at com.android.dx.cf.code.Ropper.processBlock(Ropper.java:787)
    at com.android.dx.cf.code.Ropper.doit(Ropper.java:742)
    at com.android.dx.cf.code.Ropper.convert(Ropper.java:349)
    at com.android.dx.dex.cf.CfTranslator.processMethods(CfTranslator.java:280)
    at com.android.dx.dex.cf.CfTranslator.translate0(CfTranslator.java:137)
    at com.android.dx.dex.cf.CfTranslator.translate(CfTranslator.java:93)
    at com.android.dx.command.dexer.Main.processClass(Main.java:729)
    at com.android.dx.command.dexer.Main.processFileBytes(Main.java:673)
    at com.android.dx.command.dexer.Main.access$300(Main.java:82)
    at com.android.dx.command.dexer.Main$1.processFileBytes(Main.java:602)
    at com.android.dx.cf.direct.ClassPathOpener.processArchive(ClassPathOpener.java:284)
    at com.android.dx.cf.direct.ClassPathOpener.processOne(ClassPathOpener.java:166)
    at com.android.dx.cf.direct.ClassPathOpener.process(ClassPathOpener.java:144)
    at com.android.dx.command.dexer.Main.processOne(Main.java:632)
    at com.android.dx.command.dexer.Main.processAllFiles(Main.java:505)
    at com.android.dx.command.dexer.Main.runMultiDex(Main.java:332)
    at com.android.dx.command.dexer.Main.run(Main.java:243)
    at com.android.dx.command.dexer.Main.main(Main.java:214)
    at com.android.dx.command.Main.main(Main.java:106)

I tried changing the build tools to latest

android {
    compileSdkVersion 21
    buildToolsVersion "21.1.1"

Because by default it changed to 20.0.0 which seemed to use the SDK for 4.4W, but this didn't fix my problem.

Does anyone know what could be wrong here?

EDIT:

Changing the build tools or the compile SDK did not fix the problem.

Turning the app into a multi-dex project and also adding the following

android {
    compileSdkVersion 21
    buildToolsVersion "21.1.1"

    defaultConfig {
        ...
        multiDexEnabled true
    }

...
    dexOptions {
        incremental true
        javaMaxHeapSize "4g"
    }
}

Fixed the build process, however this still seems to be just a "treatment" but not a fix to the problem.

I am not sure if this is related, but this is my dependency list:

dependencies {
    compile fileTree(dir: 'libs', include: ['*.jar'])
    compile 'com.android.support:multidex:1.0.0'
    compile 'com.android.support:appcompat-v7:21.0.2'
    compile 'com.squareup:otto:1.3.5'
    compile 'com.squareup.picasso:picasso:2.4.0'
    compile 'com.squareup.retrofit:retrofit:1.7.1'
    compile 'com.jakewharton:butterknife:6.0.0'
    compile 'com.madgag.spongycastle:core:1.51.0.0'
    compile 'com.madgag.spongycastle:prov:1.51.0.0'
    compile 'com.madgag.spongycastle:pkix:1.51.0.0'
    compile 'com.google.code.gson:gson:2.3'
    compile 'commons-io:commons-io:2.4'
    compile 'org.apache.httpcomponents:httpclient-android:4.3.5'
    compile 'com.squareup.dagger:dagger:1.2.2'
    compile 'com.squareup.dagger:dagger-compiler:1.2.2'
    compile('com.googlecode.json-simple:json-simple:1.1.1') {
        exclude module: 'junit'
    }
    compile 'com.google.android.gms:play-services:6.5.87'
}

The only new dependency since then has been the last line, which I added as per https://developer.android.com/google/gcm/client.html so I don't think that is the source of the problem.

EDIT2:

Yes, it was the source of the problem. As I needed Google Cloud Messaging, I replaced that dependency with the base as per http://developer.android.com/google/play-services/setup.html#split :

compile 'com.google.android.gms:play-services-base:6.5.87'

And it fixed the problem. Thank you for the help.

EDIT3:

As of play services 7.0.0, the GCM is in

compile 'com.google.android.gms:play-services-gcm:7.0.0'

EDIT4:

Play Services updated to 7.3.0. Please keep check of the latest version here: http://developer.android.com/google/play-services/setup.html#split

Answer 1

The error means you have reached maximum method count in your app. That does include any libraries that you use for your project.

There are two ways to tackle the issue:

1. Get rid of any third-party libraries that you don't really need. If you use google play services that might contribute a lot to the method count. Fortunately as of the latest play-services release it is possible to include only parts of the framework.
2. Use a multi dex setup for your application.