Arvados

I found following issues with collection manifest in Java SDK v2 in ManifestDecoder class:

1. In case of collections ardev-4zz18-70hlj74j6s5bao6, ardev-4zz18-de5uxhk8l1djn03 and few others the manifest starts with "." not with ". " as expected in code. This is because the collection contains folders in it.

if (!manifestStreams.get(0).startsWith(". ")) {
    throw new ArvadosClientException("Invalid first path component (expecting \".\")");
}

2. In case of collection ardev-4zz18-6rcoxf38m5odyff we have empty manifest string wchich is also not expected by SDK:

if (manifestText == null || manifestText.isEmpty()) {
    throw new ArvadosClientException("Manifest text cannot be empty.");
}