sleap-train sbatch script

[jverpeut]

I am trying to run training on our cluster and keep receiving the following error, but I think I just have the sbatch script wrong. How can we call the videos when we have multiple added for training? I will add what I have tried below and I hope this can help others using clusters for training.

Traceback (most recent call last):
  File "/data/jverpeut/env/sleap1.3.3/bin/sleap-train", line 33, in <module>
    sys.exit(load_entry_point('sleap==1.3.3', 'console_scripts', 'sleap-train')())
  File "/data/jverpeut/env/sleap1.3.3/lib/python3.7/site-packages/sleap/nn/training.py", line 2013, in main
    trainer = create_trainer_using_cli(args=args)
  File "/data/jverpeut/env/sleap1.3.3/lib/python3.7/site-packages/sleap/nn/training.py", line 2005, in create_trainer_using_cli
    video_search_paths=args.video_paths,
  File "/data/jverpeut/env/sleap1.3.3/lib/python3.7/site-packages/sleap/nn/training.py", line 673, in from_config
    with_track_only=is_id_model,
  File "/data/jverpeut/env/sleap1.3.3/lib/python3.7/site-packages/sleap/nn/training.py", line 150, in from_config
    with_track_only=with_track_only,
  File "/data/jverpeut/env/sleap1.3.3/lib/python3.7/site-packages/sleap/nn/training.py", line 168, in from_labels
    training, search_paths=video_search_paths
  File "/data/jverpeut/env/sleap1.3.3/lib/python3.7/site-packages/sleap/io/dataset.py", line 2774, in load_file
    return Labels.load_file(filename, search_paths, match_to=match_to)
  File "/data/jverpeut/env/sleap1.3.3/lib/python3.7/site-packages/sleap/io/dataset.py", line 1969, in load_file
    filename, for_object="labels", video_search=video_search, *args, **kwargs
  File "/data/jverpeut/env/sleap1.3.3/lib/python3.7/site-packages/sleap/io/format/main.py", line 113, in read
    return disp.read(filename, *args, **kwargs)
  File "/data/jverpeut/env/sleap1.3.3/lib/python3.7/site-packages/sleap/io/format/dispatch.py", line 57, in read
    return adaptor.read(file, *args, **kwargs)
  File "/data/jverpeut/env/sleap1.3.3/lib/python3.7/site-packages/sleap/io/format/labels_json.py", line 233, in read
    frames = load_labels_json_old(data_path=filename, parsed_json=dicts)
  File "/data/jverpeut/env/sleap1.3.3/lib/python3.7/site-packages/sleap/io/legacy.py", line 198, in load_labels_json_old
    videos = pd.DataFrame(data["videos"])
KeyError: 'videos'

--sbatch code--
#!/bin/bash
#SBATCH -p general
#SBATCH -q public
#SBATCH --mem=128G 
#SBATCH -c 4
#SBATCH --job-name=sleap_train
#SBATCH -t 0-4              
#SBATCH --export=NONE

### Actually request a generic GPU
#SBATCH -G a100:1

###Calling the proper packages on the ASU cluster specifically
module load mamba/latest
source activate /data/jverpeut/env/sleap1.3.3

sleap-train centroid.json threechambermodel.slp 
sleap-train centered_instance.json threechambermodel.slp 

[Marielamend]

Hello @jverpeut!

So sorry for the delayed response. It seems the problem stems from the input data.

1. Can you make sure you can open a file from the SLEAP GUI? File > Open Project... ?
   

If you can't open the file, then there could be a problem with the slp file format.

Keep us updated,
Mariela