Nate Coraor

I've gotten the dependencies installed, however, uploading the test sqlite database results in a metadata failure: ``` uploaded sqlite file WARNING:galaxy.datatypes.binary:, set_meta Exception: database is locked ```

I've gotten the database to load trying it a second time - it may be some kind of NFS issue. However, you can't run the tool because it seems to...

Could you fetch the metadata of your input file from the DB?

No I was asking for the HDA metadata from your local instance to compare. Although maybe it's irrelevant, I guess the issue here is that the dynamic option is being...

Ah. Before those, you get: ```pytb Traceback (most recent call last): File "lib/galaxy/tools/parameters/basic.py", line 835, in get_options return eval(self.dynamic_options, self.tool.code_namespace, call_other_values) File "", line 1, in File "/galaxy/main/shed_tools/toolshed.g2.bx.psu.edu/repos/devteam/cummerbund/78fcfc04fcfe/cummerbund/cummeRbund_options.py", line 10,...

:unamused:

"Testing fixes on Main in an efficient way" is indeed difficult. I do have a TACC instance of my own that I use for testing, so I could run your...

So, in my TACC instance it doesn't display the locked message, but does have the rest of the dynamic option load failures. So I'm not sure if the locked error...

I can't make much sense of the dynamic options code. `input_database` should be in the locals (`call_other_values`) passed to `eval()` but it's not? Except I can't even determine what puts...

@davebx is updating to htseq-count 0.9.1, which hopefully fixes it (or at least it's worth testing once it's updated).