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Old jaxlib releases are gone, breaking poetry's version resolution
#161 · konstin opened on Sep 2, 2021
6
HTTP Error 406: Not Acceptable when downloading model
#159 · victormaricato opened on Aug 31, 2021
1

Protocol plotly: RuntimeError: Expected embeddings in projected_reduced_embeddings_file to be of shape (3,), not (128,)
sacdallago/bio_embeddings#260 · opened on Mar 13, 2026
Protocol plotly: UnicodeDecodeError: 'utf-8' codec can't decode byte 0x89 in position 0: invalid start byte
sacdallago/bio_embeddings#258 · opened on Mar 13, 2026
1
Protocol plotly: UnicodeDecodeError: 'utf-8' codec can't decode byte 0x89 in position 0: invalid start byte
sacdallago/bio_embeddings#257 · opened on Mar 12, 2026
Protocol umap: TypeError: check_array() got an unexpected keyword argument 'ensure_all_finite'
sacdallago/bio_embeddings#256 · opened on Mar 12, 2026
1
Protocol tsne: AttributeError: 'list' object has no attribute 'shape'
sacdallago/bio_embeddings#255 · opened on Mar 12, 2026
scikit-learn tSNE NumPy array issue.
sacdallago/bio_embeddings#254 · opened on Mar 12, 2026
module 'distutils' has no attribute 'version' with solution
sacdallago/bio_embeddings#253 · opened on Mar 11, 2026
tensorboard package error
sacdallago/bio_embeddings#252 · opened on Mar 11, 2026
"transformers" package error.
sacdallago/bio_embeddings#251 · opened on Mar 11, 2026
half_model is still present in some docs
sacdallago/bio_embeddings#250 · opened on Jun 6, 2025
bio_embeddings: Protocol prottrans_bert_bfd: BadZipFile: File is not a zip file
sacdallago/bio_embeddings#249 · opened on Apr 28, 2025
Protocol esm1b: HTTPError: HTTP Error 406: Not Acceptable
sacdallago/bio_embeddings#248 · opened on Dec 30, 2024
1
Installation error in installing bio embedding package via pip
sacdallago/bio_embeddings#247 · opened on Jul 14, 2024
Can't install well to run bio_embed
sacdallago/bio_embeddings#246 · opened on Jul 10, 2024
2
Not able to run and pip install bioembeddings
sacdallago/bio_embeddings#245 · opened on Jun 25, 2024
6
Protocol prottrans_t5_bfd: HTTPError: HTTP Error 406: Not Acceptable
sacdallago/bio_embeddings#244 · opened on May 3, 2024
Can Word2Vec be used for 4, 5 and 6 kmer? If possible, which file I need to changed and which parameter. I am seeking Guidance on Adapting Word2Vec Code for 4kmer Sequences
sacdallago/bio_embeddings#243 · opened on Feb 29, 2024
Protocol prottrans_bert_bfd: OSError: Unable to load weights from pytorch checkpoint file for .catch/bio_embeddings/prottrans_bert_bfd/model_directory/pytorch_model.bin' at '.catch/bio_embeddings/prottrans_bert_bfd/model_directory/pytorch_model.bin'. If you tried to load a PyTorch model from a TF 2.0 checkpoint, please set from_tf=True.
sacdallago/bio_embeddings#242 · opened on Jan 25, 2024
Cannot Import Any Embedder "load()" has been removed, use yaml = YAML(typ='rt') yaml.load(...)
sacdallago/bio_embeddings#241 · opened on Jan 18, 2024
1
Protocol esm1b: AttributeError: 'dict' object has no attribute 'startswith'
sacdallago/bio_embeddings#240 · opened on Nov 22, 2023
from where comes the models in "bio_embeddings/utilities /defaults.yml", where is docs, parameters, dataset ?
sacdallago/bio_embeddings#239 · opened on Oct 18, 2023
Protocol prottrans_t5_xl_u50: PermissionError: [Errno 13] Permission denied: 'C:\\Users\\user\\AppData\\Local\\Temp\\tmpk7e1m0jg'
sacdallago/bio_embeddings#238 · opened on Sep 14, 2023
1
Cant install bio_embeddings in colab
sacdallago/bio_embeddings#236 · opened on Sep 5, 2023
4
AttributeError: 'dict' object has no attribute '__NUMPY_SETUP__'
sacdallago/bio_embeddings#235 · opened on Jul 16, 2023
3D Protein Embeddings
sacdallago/bio_embeddings#234 · opened on Jun 30, 2023