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prihoda avatar prihoda commented on August 18, 2024

Hi @chengyou96. Can you share the output of deepbgc info?

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chengyou96 avatar chengyou96 commented on August 18, 2024

Sure. Here it is:

INFO 22/03 16:06:09 Loading model from: /Users/cynthiayo/Library/Application Support/deepbgc/data/0.1.0/detector/deepbgc.pkl

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Caiyulu-818 avatar Caiyulu-818 commented on August 18, 2024

Did you have solved this problem yet?

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KarenGoncalves avatar KarenGoncalves commented on August 18, 2024

having the same issue here.
here is the output of deepbgc info

 _____                  ____    ____   ____
 |  _ \  ___  ___ ____ | __ )  / ___) / ___)
 | | \ \/ _ \/ _ \  _ \|  _ \ | |  _ | |
 | |_/ /  __/  __/ |_) | |_) || |_| || |___
 |____/ \___|\___| ___/|____/  \____| \____)
=================|_|===== version 0.1.18 =====
INFO    29/01 14:08:32   Available data files: ['Pfam-A.31.0.hmm.h3m', 'Pfam-A.31.0.hmm', 'Pfam-A.31.0.hmm.h3i', 'Pfam-A.31.0.hmm.h3p', 'Pfam-A.31.0.hmm.h3f', 'Pfam-A.31.0.clans.tsv']
INFO    29/01 14:08:32   ================================================================================
INFO    29/01 14:08:32   Available detectors: ['clusterfinder_original', 'clusterfinder_geneborder', 'deepbgc', 'clusterfinder_retrained']
INFO    29/01 14:08:32   --------------------------------------------------------------------------------
INFO    29/01 14:08:32   Model: clusterfinder_original
INFO    29/01 14:08:32   Loading model from: /home/karencgs/.local/share/deepbgc/data/0.1.0/detector/clusterfinder_original.pkl
INFO    29/01 14:08:33   Type: ClusterFinderHMM
INFO    29/01 14:08:33   Version: 0.1.0
INFO    29/01 14:08:33   Timestamp: 1551449904.5101252 (2019-03-01T09:18:24.510125)
INFO    29/01 14:08:33   --------------------------------------------------------------------------------
INFO    29/01 14:08:33   Model: clusterfinder_geneborder
INFO    29/01 14:08:33   Loading model from: /home/karencgs/.local/share/deepbgc/data/0.1.0/detector/clusterfinder_geneborder.pkl
INFO    29/01 14:08:33   Type: GeneBorderHMM
INFO    29/01 14:08:33   Version: 0.1.0
INFO    29/01 14:08:33   Timestamp: 1551449863.1564941 (2019-03-01T09:17:43.156494)
INFO    29/01 14:08:33   --------------------------------------------------------------------------------
INFO    29/01 14:08:33   Model: deepbgc
INFO    29/01 14:08:33   Loading model from: /home/karencgs/.local/share/deepbgc/data/0.1.0/detector/deepbgc.pkl
Using TensorFlow backend.
WARNING 29/01 14:08:44   From /home/karencgs/deepbcg/lib/python3.7/site-packages/keras/backend/tensorflow_backend.py:3733: calling dropout (from tensorflow.python.ops.nn_ops) with keep_prob is deprecated and will be removed in a future version.
Instructions for updating:
Please use `rate` instead of `keep_prob`. Rate should be set to `rate = 1 - keep_prob`.
WARNING 29/01 14:08:44   From /home/karencgs/deepbcg/lib/python3.7/site-packages/keras/backend/tensorflow_backend.py:207: The name tf.global_variables is deprecated. Please use tf.compat.v1.global_variables instead.

WARNING 29/01 14:08:44   From /home/karencgs/deepbcg/lib/python3.7/site-packages/keras/backend/tensorflow_backend.py:216: The name tf.is_variable_initialized is deprecated. Please use tf.compat.v1.is_variable_initialized instead.

WARNING 29/01 14:08:45   From /home/karencgs/deepbcg/lib/python3.7/site-packages/keras/backend/tensorflow_backend.py:223: The name tf.variables_initializer is deprecated. Please use tf.compat.v1.variables_initializer instead.

INFO    29/01 14:08:45   Type: KerasRNN
INFO    29/01 14:08:45   Version: 0.1.0
INFO    29/01 14:08:45   Timestamp: 1551305667.986168 (2019-02-27T17:14:27.986168)
INFO    29/01 14:08:45   --------------------------------------------------------------------------------
INFO    29/01 14:08:45   Model: clusterfinder_retrained
INFO    29/01 14:08:45   Loading model from: /home/karencgs/.local/share/deepbgc/data/0.1.0/detector/clusterfinder_retrained.pkl
INFO    29/01 14:08:45   Type: DiscreteHMM
INFO    29/01 14:08:45   Version: 0.1.0
INFO    29/01 14:08:45   Timestamp: 1551449925.734045 (2019-03-01T09:18:45.734045)
INFO    29/01 14:08:45   ================================================================================
INFO    29/01 14:08:45   Available classifiers: ['product_class', 'product_activity']
INFO    29/01 14:08:45   --------------------------------------------------------------------------------
INFO    29/01 14:08:45   Model: product_class
INFO    29/01 14:08:45   Loading model from: /home/karencgs/.local/share/deepbgc/data/0.1.0/classifier/product_class.pkl
/home/karencgs/deepbcg/lib/python3.7/site-packages/sklearn/utils/deprecation.py:143: FutureWarning: The sklearn.ensemble.forest module is  deprecated in version 0.22 and will be removed in version 0.24. The corresponding classes / functions should instead be imported from sklearn.ensemble. Anything that cannot be imported from sklearn.ensemble is now part of the private API.
  warnings.warn(message, FutureWarning)
/home/karencgs/deepbcg/lib/python3.7/site-packages/sklearn/utils/deprecation.py:143: FutureWarning: The sklearn.tree.tree module is  deprecated in version 0.22 and will be removed in version 0.24. The corresponding classes / functions should instead be imported from sklearn.tree. Anything that cannot be imported from sklearn.tree is now part of the private API.
  warnings.warn(message, FutureWarning)
/home/karencgs/deepbcg/lib/python3.7/site-packages/sklearn/base.py:334: UserWarning: Trying to unpickle estimator DecisionTreeClassifier from version 0.18.2 when using version 0.23.0. This might lead to breaking code or invalid results. Use at your own risk.
  UserWarning)
/home/karencgs/deepbcg/lib/python3.7/site-packages/sklearn/base.py:334: UserWarning: Trying to unpickle estimator RandomForestClassifier from version 0.18.2 when using version 0.23.0. This might lead to breaking code or invalid results. Use at your own risk.
  UserWarning)
INFO    29/01 14:08:45   Type: RandomForestClassifier
INFO    29/01 14:08:45   Version: 0.1.0
INFO    29/01 14:08:45   Timestamp: 1551781410.019103 (2019-03-05T05:23:30.019103)
INFO    29/01 14:08:45   --------------------------------------------------------------------------------
INFO    29/01 14:08:45   Model: product_activity
INFO    29/01 14:08:45   Loading model from: /home/karencgs/.local/share/deepbgc/data/0.1.0/classifier/product_activity.pkl
INFO    29/01 14:08:45   Type: RandomForestClassifier
INFO    29/01 14:08:45   Version: 0.1.0
INFO    29/01 14:08:45   Timestamp: 1551781433.886473 (2019-03-05T05:23:53.886473)
INFO    29/01 14:08:45   ================================================================================
INFO    29/01 14:08:45   All OK

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