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sidhomj / DeepTCR

Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data
https://sidhomj.github.io/DeepTCR/
MIT License
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KNN_Repertoire_Classifer Error #10

Closed hejing3283 closed 4 years ago

hejing3283 commented 5 years ago

Input data structure 6 labels, each label has 4 files, I tried, folds= 4, folds = 5, and folds = 10, all return the same error.

command is

DTCRU.KNN_Repertoire_Classifier(folds=10, Load_Prev_Data=False, metrics=['AUC', 'F1', 'Recall', 'Precision'], plot_metrics=True, plot_type='box', by_class=False, n_jobs=40)

error msg start -----------------------------

File "/home/ubuntu/anaconda3/envs/dl/lib/python3.6/site-packages/DeepTCR/DeepTCR.py", line 2290, in KNN_Repertoire_Classifier sns.catplot(data=df_out, x='Metric', y='Value', kind=plot_type) File "/home/ubuntu/anaconda3/envs/dl/lib/python3.6/site-packages/seaborn/categorical.py", line 3724, in catplot p.establish_colors(color, palette, 1) File "/home/ubuntu/anaconda3/envs/dl/lib/python3.6/site-packages/seaborn/categorical.py", line 315, in establish_colors lum = min(light_vals) * .6 ValueError: min() arg is an empty sequence

error msg end -----------------------------

sidhomj commented 5 years ago

this seems like an issue with seaborn... hmm, i'm not sure exactly what's going on. does the method work with by_class is set to True?

hejing3283 commented 5 years ago

No. I think I figured out the question. The file names under each directory need to be unique across all files, Otherwise they are going to be over-written. I renamed all files for each class. Now it seems to work.