Chris Rodgers

replacing deprecated imresize

4

In scipy v1.3, the `scipy.misc.imread` and `scipy.misc.imresize` functions are no longer available. These are used throughout this package, especially in loading data in `pose_dataset.py`. There's an easy replacement for `imread`...

This PR restructures this module so that: * It can be imported in another script. "import PoseTF" now gives access to all of the functions contained within * GPU options,...

[Suggestion] make this module importable in Python; control over GPU options

2

Hi @eldar thank you for this amazing work! I am using this algorithm to track animal pose in images and it works fantastically. I have forked this repository and made...

problems opening hdf5 file

8

I am somewhat frequently getting HDF5 errors when starting a session. ``` DEBUG [registry.get] Found as subclass of in module registry.py:111 autopilot.tasks.paft DEBUG [data.subject.Subject.DistractorTaskHigh220726_v8] error opening /home/mouse/autopilot/data/DistractorTaskHigh220726_v8.h5 subject.py:186 Exception in...

I get this error: ``` ERROR [data.subject.Subject.DistractorTaskHigh220726_v7] Couldnt trim data given to graduation objects to current set of sessions, using subject.py:781 full data history. got exception only size-1 arrays can...

I get this error: ``` File "/home/pi/dev/autopilot/autopilot/networking/node.py", line 194, in handle_listen msg = Message(msg[-1], expand_arrays=self.expand) File "/home/pi/dev/autopilot/autopilot/networking/message.py", line 77, in __init__ deserialized = json.loads(msg, object_pairs_hook=self._deserialize_numpy) File "/usr/lib/python3.9/json/__init__.py", line 359, in...

As written, the v0.5 of _prepare_continuous_data return a path called something like `/data/TASK_NAME/S00_STEPNAME/session_N` instead of `/data/TASK_NAME/S00_STEPNAME/continuous_data/session_N` The problem is here: https://github.com/auto-pi-lot/autopilot/blob/04b5968ba02c8a1413a27eb6a138b6a186b130f1/autopilot/data/subject.py#L787 The node is correctly created but the wrong path...

autopilot.setup does not remember previous values for AGENT and AUDIOSERVER

1

When I run `python autopilot.setup` it generally remembers all the previous values for preferences. I assume it pulls them from `prefs.json`. The exception is AGENT and AUDIOSERVER, which always default...

init_hardware on a Child fails to start pigpiod due to threading problem

2

Having trouble initializing hardware on a Child Pi. As far as I can tell, the first time a GPIO is initalized, it creates a subprocess for pigpiod and stores it...

When running my task I get this traceback: ``` ERROR [agents.pilot.Pilot.rpiparent03] got exception while running task, task stopping pilot.py:857 type object 'TrialData' has no attribute 'columns' ╭───────────────────────────────────────────────── Traceback (most recent...