Problems with using command train about antrax HOT 7 OPEN

Hey Sean,
This is a python error, not related to the matlab engine.
Can you try this fix:

In the file anTraX/antrax/classifier.py, change line 513 to:

cw = class_weight.compute_class_weight(class_weight='balanced', classes =np.unique(FL.classes), y=FL.classes)

Then update the python code with pip install -e .
I am unable to test this myself currently, so let me know what happens!

from antrax.

Hi your first solution helped the first issue, but I'm currently trialing your other datasets to get a sense of how long my tests were. However when I try and run train on the V25 sample, it keeps coming up with the same error:

Epoch 1/3
124/1000 [==>...........................] - ETA: 5:54 - loss: 3.5632 - acc: 0.3478Traceback (most recent call last):
File "/home/sean/anaconda3/envs/test/bin/antrax", line 33, in
sys.exit(load_entry_point('antrax', 'console_scripts', 'antrax')())
File "/home/sean/Documents/AntTrax/anTraX/antrax/cli.py", line 659, in main
""")
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/sigtools/modifiers.py", line 158, in call
return self.func(*args, **kwargs)
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/clize/runner.py", line 363, in run
ret = cli(*args)
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/clize/runner.py", line 220, in call
return func(*posargs, **kwargs)
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/clize/runner.py", line 262, in _cli
return func('{0} {1}'.format(name, command), *args)
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/clize/runner.py", line 220, in call
return func(*posargs, **kwargs)
File "/home/sean/Documents/AntTrax/anTraX/antrax/cli.py", line 447, in train
c.train(examplesdir, ne=ne, aug_options=aug_options)
File "/home/sean/Documents/AntTrax/anTraX/antrax/classifier.py", line 533, in train
verbose=verbose)
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/tensorflow_core/python/keras/engine/training.py", line 1296, in fit_generator
steps_name='steps_per_epoch')
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/tensorflow_core/python/keras/engine/training_generator.py", line 221, in model_iteration
batch_data = _get_next_batch(generator)
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/tensorflow_core/python/keras/engine/training_generator.py", line 363, in _get_next_batch
generator_output = next(generator)
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/tensorflow_core/python/keras/utils/data_utils.py", line 789, in get
six.reraise(*sys.exc_info())
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/six.py", line 719, in reraise
raise value
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/tensorflow_core/python/keras/utils/data_utils.py", line 783, in get
inputs = self.queue.get(block=True).get()
File "/home/sean/anaconda3/envs/test/lib/python3.7/multiprocessing/pool.py", line 657, in get
raise self._value
File "/home/sean/anaconda3/envs/test/lib/python3.7/multiprocessing/pool.py", line 121, in worker
result = (True, func(*args, **kwds))
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/tensorflow_core/python/keras/utils/data_utils.py", line 571, in get_index
return _SHARED_SEQUENCES[uid][i]
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/keras_preprocessing/image/iterator.py", line 65, in getitem
return self._get_batches_of_transformed_samples(index_array)
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/keras_preprocessing/image/iterator.py", line 230, in _get_batches_of_transformed_samples
interpolation=self.interpolation)
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/keras_preprocessing/image/utils.py", line 114, in load_img
img = pil_image.open(io.BytesIO(f.read()))
File "/home/sean/anaconda3/envs/test/lib/python3.7/site-packages/PIL/Image.py", line 3009, in open
"cannot identify image file %r" % (filename if filename else fp)
PIL.UnidentifiedImageError: cannot identify image file <_io.BytesIO object at 0x7f37b8629470>

from antrax.

Both errors are due to compatibility issue with 3rd party packages.
To fix your last error, reinstall the pillow package:

pip uninstall pillow
pip install pillow==8.4.0

Thanks for bringing this to my attention, I will update the requirement file accordingly.

from antrax.

Uninstalling and installing pillow doesn't seem to have fixed the issue, any other ideas to what it might be?

from antrax.

Can you verify the pillow version?
In a python console:

import PIL
print(PIL.__version__)

from antrax.

This is the error I get:
(test) sean@seans-ants:~$ import PIL
Traceback (most recent call last):
File "/usr/lib/command-not-found", line 28, in
from CommandNotFound import CommandNotFound
File "/usr/lib/python3/dist-packages/CommandNotFound/CommandNotFound.py", line 19, in
from CommandNotFound.db.db import SqliteDatabase
File "/usr/lib/python3/dist-packages/CommandNotFound/db/db.py", line 5, in
import apt_pkg
ImportError: /usr/local/MATLAB/MATLAB_Runtime/v96/sys/os/glnxa64/libstdc++.so.6: version `GLIBCXX_3.4.29' not found (required by /lib/x86_64-linux-gnu/libapt-pkg.so.6.0)

from antrax.

from antrax.