build.gradle

// This hack works with com.android.tools.build:gradle:0.2, won't work in later version without modification

apply plugin: 'android'

targetCompatibility = 1.6
sourceCompatibility = 1.6

android {
	target = 'android-14'

	sourceSets {
		main {
			manifest.srcFile 'AndroidManifest.xml'
			java.srcDir 'src'
			res.srcDir 'res'
			assets.srcDir 'assets'
			resources.srcDir 'src'
		}
		test {
			java.srcDir 'tests/src'
		}
	}
}

dependencies {
	compile project(':main')
	compile fileTree(dir: '../main/libs', include: '*.jar')
	compile fileTree(dir: '../thirdparty/actionbar-sherlock/library/libs', include: '*.jar')
}

task copyNativeLibs(type: Copy) {
	from(new File(project(':main').buildDir, 'native-libs')) { include '**/*.so' }
	into new File(buildDir, 'native-libs')
}

tasks.withType(JavaCompile) { javaCompileTask -> javaCompileTask.dependsOn copyNativeLibs }

clean.dependsOn 'cleanCopyNativeLibs'

tasks.withType(com.android.build.gradle.PackageApplicationTask) { pkgTask ->
	pkgTask.jniDir new File(buildDir, 'native-libs')
}

Hi man !! how are you doing ?
We have a similar problem than you. We took a look your solution, but we do not understand what do you mean with "main". Could you share to us your project structure ?

Thanks in advance.