Missing import

[MatteoLacki]

Hi,

In the latest version of im2deep (im2deep==0.3.1), it is impossible to do from im2deep.calibrate import im2ccs.
You might want to fix it for compatibility with ms2rescore.

(veve) [matteo@pingu pipelines]$ /tmp/veve/bin/ms2rescore
2024-11-27 10:10:55.685477: E external/local_xla/xla/stream_executor/cuda/cuda_fft.cc:477] Unable to register cuFFT factory: Attempting to register factory for plugin cuFFT when one has already been registered
WARNING: All log messages before absl::InitializeLog() is called are written to STDERR
E0000 00:00:1732698655.702421 1157024 cuda_dnn.cc:8310] Unable to register cuDNN factory: Attempting to register factory for plugin cuDNN when one has already been registered
E0000 00:00:1732698655.707394 1157024 cuda_blas.cc:1418] Unable to register cuBLAS factory: Attempting to register factory for plugin cuBLAS when one has already been registered
Traceback (most recent call last):
  File "/tmp/veve/bin/ms2rescore", line 5, in <module>
    from ms2rescore.__main__ import main
  File "/tmp/veve/lib64/python3.11/site-packages/ms2rescore/__init__.py", line 16, in <module>
    from ms2rescore.core import rescore  # noqa: F401 E402
    ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/tmp/veve/lib64/python3.11/site-packages/ms2rescore/core.py", line 12, in <module>
    from ms2rescore.feature_generators import FEATURE_GENERATORS
  File "/tmp/veve/lib64/python3.11/site-packages/ms2rescore/feature_generators/__init__.py", line 10, in <module>
    from ms2rescore.feature_generators.im2deep import IM2DeepFeatureGenerator
  File "/tmp/veve/lib64/python3.11/site-packages/ms2rescore/feature_generators/im2deep.py", line 20, in <module>
    from im2deep.calibrate import im2ccs
ImportError: cannot import name 'im2ccs' from 'im2deep.calibrate' (/tmp/veve/lib64/python3.11/site-packages/im2deep/calibrate.py)

That was not the case with im2deep==0.2.0.

User requirements.

(veve) [matteo@pingu pipelines]$ pip freeze
absl-py==2.1.0
annotated-types==0.7.0
astunparse==1.6.3
attrs==24.2.0
cascade-config==0.4.0
certifi==2024.8.30
charset-normalizer==3.4.0
click==8.1.7
contourpy==1.3.1
customtkinter==5.2.2
cycler==0.12.1
darkdetect==0.8.0
deeplc==3.0.8
deeplcretrainer==1.0.1
flatbuffers==24.3.25
fonttools==4.55.0
gast==0.6.0
google-pasta==0.2.0
greenlet==3.1.1
grpcio==1.68.0
h5py==3.12.1
hdf5plugin==5.0.0
idna==3.10
im2deep==0.3.1
importlib_metadata==8.5.0
Jinja2==3.1.4
job-pool==0.2.6
joblib==1.4.2
jsonschema==4.23.0
jsonschema-specifications==2024.10.1
keras==3.7.0
kiwisolver==1.4.7
libclang==18.1.1
llvmlite==0.43.0
lxml==5.3.0
Markdown==3.7
markdown-it-py==3.0.0
MarkupSafe==3.0.2
matplotlib==3.9.2
mdurl==0.1.2
ml-dtypes==0.4.1
mokapot==0.10.0
ms2pip==4.0.0
ms2rescore==3.1.3.post1
ms2rescore-rs==0.4.0.post1
namex==0.0.8
numba==0.60.0
numpy==1.26.4
opt_einsum==3.4.0
optree==0.13.1
packaging==24.2
pandas==1.5.3
pillow==11.0.0
plotly==5.24.1
progressbar2==4.5.0
protobuf==5.28.3
psims==1.3.4
psm-utils==1.2.0
pyarrow==18.1.0
pydantic==2.10.2
pydantic_core==2.27.1
pygam==0.9.1
Pygments==2.18.0
pyopenms==3.1.0
pyparsing==3.2.0
pyteomics==4.7.5
python-dateutil==2.9.0.post0
python-utils==3.9.1
pytz==2024.2
referencing==0.35.1
requests==2.32.3
rich==13.9.4
rpds-py==0.21.0
scikit-learn==1.5.2
scipy==1.11.4
six==1.16.0
SQLAlchemy==1.4.54
tenacity==9.0.0
tensorboard==2.18.0
tensorboard-data-server==0.7.2
tensorflow==2.18.0
tensorflow-io-gcs-filesystem==0.37.1
termcolor==2.5.0
threadpoolctl==3.5.0
tomlkit==0.13.2
tqdm==4.67.1
triqler==0.7.3
typing_extensions==4.12.2
tzdata==2024.2
urllib3==2.2.3
Werkzeug==3.1.3
wrapt==1.17.0
xgboost==1.7.6
zipp==3.21.0