ValueError: numpy.ndarray大小已更改，可能指示二进制不兼容

Question

我正在尝试让numpy<1.19.0和ConfigSpace==0.4.16在python==3.7 conda环境中工作。已安装的numpy版本为1.18.5。

我收到以下错误：

Traceback (most recent call last):
  File "/home/user/.conda/envs/deephyper/bin/deephyper", line 5, in <module>
    from deephyper.core.cli import main
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/deephyper/core/cli/__init__.py", line 1, in <module>
    from deephyper.core.cli.cli import main
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/deephyper/core/cli/cli.py", line 9, in <module>
    from deephyper.core.cli import hps, nas, balsam_submit
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/deephyper/core/cli/hps.py", line 6, in <module>
    from deephyper.search.util import load_attr_from
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/deephyper/search/__init__.py", line 6, in <module>
    from deephyper.search.search import Search
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/deephyper/search/search.py", line 8, in <module>
    from deephyper.evaluator.evaluate import Evaluator
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/deephyper/evaluator/__init__.py", line 5, in <module>
    from deephyper.evaluator.evaluate import Encoder
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/deephyper/evaluator/evaluate.py", line 15, in <module>
    import skopt
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/skopt/__init__.py", line 45, in <module>
    from . import callbacks
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/skopt/callbacks.py", line 17, in <module>
    from skopt.utils import dump
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/skopt/utils.py", line 19, in <module>
    from .sampler import Sobol, Lhs, Hammersly, Halton, Grid
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/skopt/sampler/__init__.py", line 4, in <module>
    from .lhs import Lhs
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/skopt/sampler/lhs.py", line 9, in <module>
    from ..space import Space, Categorical
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/skopt/space/__init__.py", line 5, in <module>
    from .space import *
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/skopt/space/space.py", line 27, in <module>
    import ConfigSpace as CS
  File "/home/user/.conda/envs/deephyper/lib/python3.7/site-packages/ConfigSpace/__init__.py", line 37, in <module>
    from ConfigSpace.configuration_space import Configuration, \
  File "ConfigSpace/configuration_space.pyx", line 39, in init ConfigSpace.configuration_space
  File "ConfigSpace/hyperparameters.pyx", line 1, in init ConfigSpace.hyperparameters
ValueError: numpy.ndarray size changed, may indicate binary incompatibility. Expected 88 from C header, got 80 from PyObject

我尝试了其他类似问题中建议的解决方案，例如尝试其他版本的numpy或删除所有numpy安装，并使用pip options --no-cache-dir --no-binary重新安装numpy和ConfigSpace，但错误仍然存在。

有没有其他我可以尝试的潜在解决方案？

Answer 1

我通过咨询this GitHub issue page获得了一些关于这个问题的更多见解。事实证明，如果来自PyObject的大小小于来自C标头的大小，则必须升级由错误引用的包(这里是numpy)来解决错误，反之亦然。

我能够通过将numpy升级到1.20.0版本来解决这个问题，尽管该版本的要求是numpy<1.19.0。

Answer 2

分享这一点以防对其他人有帮助:我试图让fairseq工作，但由于可能的原因遇到了同样的ValueError问题，因为二进制不兼容，并且Jake的suggestion将numpy更新到1.20.0帮助解决了这个问题，甚至在特别要求numpy<1.19.0的情况下也是如此。

Answer 3

我遇到了同样的问题：ValueError: numpy.ndarray size changed, may indicate binary incompatibility. Expected 88 from C header, got 80 from PyObject，这个解决方案对我很有效。具体地说，使用Dockerfile创建镜像时，我安装了需要numpy<1.19.0的flair==0.8.0.post1。但是在安装flair==0.8.0.post1之后，我安装了numpy==1.20.0，这样就避免了这个问题。Dockerfile的这一部分是：

RUN pip install flair==0.8.0.post1
RUN pip install numpy==1.20.0