Support for linux arm64? <jemalloc>: Unsupported system page size and Segmentation fault
#839
Comments
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In general, we support What page size is your system running on? getconf PAGESIZE
# 4096Just googling your problem, a similar issue popped up here: pola-rs/polars#15549. Setting cc @xhochy |
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I opened a PR here: conda-forge/tabmat-feedstock#50 |
5 tasks
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Thanks Jan! A quick raised an error, I'll have a closer look tomorrow. |
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@mlondschien can you try the latest build |
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Same as before. (base) mlondsch@nid005008:~/code$ conda install -c conda-forge tabmat=4.0.1=py312ha2895bd_1
Channels:
- conda-forge
Platform: linux-aarch64
Collecting package metadata (repodata.json): done
Solving environment: done
## Package Plan ##
environment location: /users/mlondsch/miniforge3
added / updated specs:
- tabmat==4.0.1=py312ha2895bd_1
The following packages will be downloaded:
package | build
---------------------------|-----------------
astor-0.8.1 | pyh9f0ad1d_0 25 KB conda-forge
cached_property-1.5.2 | pyha770c72_1 11 KB conda-forge
formulaic-1.0.2 | pyhd8ed1ab_0 72 KB conda-forge
graphlib-backport-1.0.3 | pyhd8ed1ab_0 10 KB conda-forge
interface_meta-1.3.0 | pyhd8ed1ab_0 16 KB conda-forge
libblas-3.9.0 |23_linuxaarch64_openblas 15 KB conda-forge
libcblas-3.9.0 |23_linuxaarch64_openblas 14 KB conda-forge
libgfortran-14.1.0 | he9431aa_1 51 KB conda-forge
libgfortran-ng-14.1.0 | he9431aa_1 51 KB conda-forge
libgfortran5-14.1.0 | h9420597_1 1.0 MB conda-forge
libjemalloc-local-5.3.0 | hd600fc2_0 1.5 MB conda-forge
liblapack-3.9.0 |23_linuxaarch64_openblas 14 KB conda-forge
libopenblas-0.3.27 |pthreads_h076ed1e_1 4.1 MB conda-forge
numpy-2.1.1 | py312h2eb110b_0 6.8 MB conda-forge
openssl-3.3.2 | h86ecc28_0 3.3 MB conda-forge
pandas-2.2.2 | py312h14eacfc_1 14.5 MB conda-forge
python-dateutil-2.9.0 | pyhd8ed1ab_0 218 KB conda-forge
python-tzdata-2024.1 | pyhd8ed1ab_0 141 KB conda-forge
pytz-2024.2 | pyhd8ed1ab_0 183 KB conda-forge
scipy-1.14.1 | py312hca5e164_0 16.6 MB conda-forge
six-1.16.0 | pyh6c4a22f_0 14 KB conda-forge
tabmat-4.0.1 | py312ha2895bd_1 561 KB conda-forge
typing-extensions-4.12.2 | hd8ed1ab_0 10 KB conda-forge
typing_extensions-4.12.2 | pyha770c72_0 39 KB conda-forge
wrapt-1.16.0 | py312hb2c0f52_1 61 KB conda-forge
------------------------------------------------------------
Total: 49.3 MB
The following NEW packages will be INSTALLED:
astor conda-forge/noarch::astor-0.8.1-pyh9f0ad1d_0
cached_property conda-forge/noarch::cached_property-1.5.2-pyha770c72_1
formulaic conda-forge/noarch::formulaic-1.0.2-pyhd8ed1ab_0
graphlib-backport conda-forge/noarch::graphlib-backport-1.0.3-pyhd8ed1ab_0
interface_meta conda-forge/noarch::interface_meta-1.3.0-pyhd8ed1ab_0
libblas conda-forge/linux-aarch64::libblas-3.9.0-23_linuxaarch64_openblas
libcblas conda-forge/linux-aarch64::libcblas-3.9.0-23_linuxaarch64_openblas
libgfortran conda-forge/linux-aarch64::libgfortran-14.1.0-he9431aa_1
libgfortran-ng conda-forge/linux-aarch64::libgfortran-ng-14.1.0-he9431aa_1
libgfortran5 conda-forge/linux-aarch64::libgfortran5-14.1.0-h9420597_1
libjemalloc-local conda-forge/linux-aarch64::libjemalloc-local-5.3.0-hd600fc2_0
liblapack conda-forge/linux-aarch64::liblapack-3.9.0-23_linuxaarch64_openblas
libopenblas conda-forge/linux-aarch64::libopenblas-0.3.27-pthreads_h076ed1e_1
numpy conda-forge/linux-aarch64::numpy-2.1.1-py312h2eb110b_0
pandas conda-forge/linux-aarch64::pandas-2.2.2-py312h14eacfc_1
python-dateutil conda-forge/noarch::python-dateutil-2.9.0-pyhd8ed1ab_0
python-tzdata conda-forge/noarch::python-tzdata-2024.1-pyhd8ed1ab_0
pytz conda-forge/noarch::pytz-2024.2-pyhd8ed1ab_0
scipy conda-forge/linux-aarch64::scipy-1.14.1-py312hca5e164_0
six conda-forge/noarch::six-1.16.0-pyh6c4a22f_0
tabmat conda-forge/linux-aarch64::tabmat-4.0.1-py312ha2895bd_1
typing-extensions conda-forge/noarch::typing-extensions-4.12.2-hd8ed1ab_0
typing_extensions conda-forge/noarch::typing_extensions-4.12.2-pyha770c72_0
wrapt conda-forge/linux-aarch64::wrapt-1.16.0-py312hb2c0f52_1
The following packages will be UPDATED:
openssl 3.3.1-h86ecc28_3 --> 3.3.2-h86ecc28_0
Proceed ([y]/n)? y
Downloading and Extracting Packages:
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
(base) mlondsch@nid005008:~/code$ conda install glum
Channels:
- conda-forge
Platform: linux-aarch64
Collecting package metadata (repodata.json): done
Solving environment: done
## Package Plan ##
environment location: /users/mlondsch/miniforge3
added / updated specs:
- glum
The following packages will be downloaded:
package | build
---------------------------|-----------------
glum-3.0.2 | py312h14eacfc_0 428 KB conda-forge
joblib-1.4.2 | pyhd8ed1ab_0 215 KB conda-forge
numexpr-2.10.0 | py312ha3b5b07_0 154 KB conda-forge
scikit-learn-1.5.2 | py312h2605d20_1 9.7 MB conda-forge
threadpoolctl-3.5.0 | pyhc1e730c_0 23 KB conda-forge
------------------------------------------------------------
Total: 10.5 MB
The following NEW packages will be INSTALLED:
glum conda-forge/linux-aarch64::glum-3.0.2-py312h14eacfc_0
joblib conda-forge/noarch::joblib-1.4.2-pyhd8ed1ab_0
numexpr conda-forge/linux-aarch64::numexpr-2.10.0-py312ha3b5b07_0
scikit-learn conda-forge/linux-aarch64::scikit-learn-1.5.2-py312h2605d20_1
threadpoolctl conda-forge/noarch::threadpoolctl-3.5.0-pyhc1e730c_0
Proceed ([y]/n)? y
Downloading and Extracting Packages:
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
(base) mlondsch@nid005008:~/code$ ipython
Python 3.10.12 (main, Jul 29 2024, 16:56:48) [GCC 11.4.0]
Type 'copyright', 'credits' or 'license' for more information
IPython 8.26.0 -- An enhanced Interactive Python. Type '?' for help.
In [1]: import glum
<jemalloc>: Unsupported system page size
In [2]: In [2]: import numpy as np
...:
...: In [3]: X = np.random.rand(10, 3)
...:
...: In [4]: y = np.random.rand(10)
...:
...: In [5]: glum.GeneralizedLinearRegressor().fit(X, y)
<jemalloc>: Unsupported system page size
<jemalloc>: Unsupported system page size
Segmentation fault (core dumped)
(base) mlondsch@nid005008:~/code$ ipython
Python 3.10.12 (main, Jul 29 2024, 16:56:48) [GCC 11.4.0]
Type 'copyright', 'credits' or 'license' for more information
IPython 8.26.0 -- An enhanced Interactive Python. Type '?' for help.
In [1]: import tabmat
<jemalloc>: Unsupported system page size |
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Following the installation steps of (as suggested by the awesome cscs support) to build locally did the trick! |
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Did you set the |
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No. It's also not set by default. edit: below are the full build logs, in case this helps |
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On the conda side we probably need conda-forge/jemalloc-feedstock#30 |
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I am using
glumon anarm64machine. Both after installing fromcondaandpip(NB: why are there no arm64 linux wheels? Outputs below are fromcondainstallation) and importingglum, I getFitting a model results in a segmentation fault:
Does glum support arm64 chips?
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