index.put(relativePath.toRelativePath(), entrySnapshot);
            return SnapshotVisitResult.CONTINUE;
        });
        return index;
    }

    public static Map<String, FileSystemLocationSnapshot> rootIndex(FileSystemSnapshot snapshot) {
        HashMap<String, FileSystemLocationSnapshot> index = new HashMap<>();
        snapshot.accept(entrySnapshot -> {
            index.put(entrySnapshot.getAbsolutePath(), entrySnapshot);

                try {
                    // Previous outputs can be in a different place than the current outputs
                    outputChangeListener.invalidateCachesFor(SnapshotUtil.rootIndex(snapshot).keySet());
                    cleaner.cleanupOutputs(snapshot);
                } catch (IOException e) {

        for (FileSystemSnapshot outputFileSnapshot : outputFileSnapshots.values()) {
            try {
                outputChangeListener.invalidateCachesFor(SnapshotUtil.rootIndex(outputFileSnapshot).keySet());
                outputsCleaner.cleanupOutputs(outputFileSnapshot);
            } catch (IOException e) {
                throw new UncheckedIOException(e);
            }
        }

        val corePackageIndex = project.getService(PackageIndex::class.java) as CorePackageIndex
        val rootsIndex = JvmDependenciesDynamicCompoundIndex().apply {
            addIndex(JvmDependenciesIndexImpl(roots))
            indexedRoots.forEach { javaRoot ->
                if (javaRoot.file.isDirectory) {