kxk302

Failure running my ML workflows

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I have 3 workflows that use Galaxy's ML tools (namely Keras for neural networks). They all worked fine last time I ran them (maybe a month ago?). These 3 workflows...

Currently, get_scoring() in galaxy_ml/utils.py assumes 'secondary_scoring' is a comma separated string. It seems galaxy now provides a list instead. Must revise get_scoring() so it can handle a list and a...

To reproduce the problem, run the following command: planemo test --docker ./tools/sklearn/lightgbm.xml Standard error: ``` Using TensorFlow backend. /usr/local/lib/python3.6/site-packages/sklearn/externals/joblib/__init__.py:15: DeprecationWarning: sklearn.externals.joblib is deprecated in 0.21 and will be removed in...

When doing multi-class classification, the labels file need to be presented in one-hot encoding to a neural network, so categorical cross entropy can be calculated during training. Currently, no ML...