Pandas version checks
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[x] I have checked that this issue has not already been reported.
-
[x] I have confirmed this bug exists on the latest version of pandas.
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[x] I have confirmed this bug exists on the main branch of pandas.
Reproducible Example
Build Fails on Raspberry Pi 3 running Raspberry Pi OS based on Debian Trixie (13) on ARMHF (32 Bit Mode).
Issue Description
Everything was working fine on Debian Boorworm (12) ARMHF on a Raspberry Pi 3.
When I decided to upgrade today to Debian Trixie (13) ARMHF, I had to create a new venv since Python changed from Version 3.11 to 3.13.
Unfortunately, I couldn't build pandas at all 😞.
And, despite the Claims in the Error Message, there is no Log File at all about why Meson failed to build.
Expected Behavior
Build should succeed and I should be able to use pandas within my Python Application.
Installed Versions
Cannot build/install.
Tried 2.3.1 which is latest:
Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
Requirement already satisfied: python-can in ./venv/lib/python3.13/site-packages (from -r requirements.txt (line 1)) (4.6.1)
Collecting pandas (from -r requirements.txt (line 2))
Using cached pandas-2.3.1.tar.gz (4.5 MB)
Installing build dependencies ... done
Getting requirements to build wheel ... done
Installing backend dependencies ... done
Preparing metadata (pyproject.toml) ... error
error: subprocess-exited-with-error
× Preparing metadata (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [31 lines of output]
+ meson setup /tmp/pip-install-y9j9k_v2/pandas_d677fcd2c13643ff8c24a90c0a9f811f /tmp/pip-install-y9j9k_v2/pandas_d677fcd2c13643ff8c24a90c0a9f811f/.mesonpy-uutfurzj -Dbuildtype=release -Db_ndebug=if-release -Db_vscrt=md --vsenv --native-file=/tmp/pip-install-y9j9k_v2/pandas_d677fcd2c13643ff8c24a90c0a9f811f/.mesonpy-uutfurzj/meson-python-native-file.ini
The Meson build system
Version: 1.8.3
Source dir: /tmp/pip-install-y9j9k_v2/pandas_d677fcd2c13643ff8c24a90c0a9f811f
Build dir: /tmp/pip-install-y9j9k_v2/pandas_d677fcd2c13643ff8c24a90c0a9f811f/.mesonpy-uutfurzj
Build type: native build
Project name: pandas
Project version: 2.3.1
C compiler for the host machine: cc (gcc 14.2.0 "cc (Raspbian 14.2.0-19+rpi1) 14.2.0")
C linker for the host machine: cc ld.bfd 2.44
C++ compiler for the host machine: c++ (gcc 14.2.0 "c++ (Raspbian 14.2.0-19+rpi1) 14.2.0")
C++ linker for the host machine: c++ ld.bfd 2.44
Cython compiler for the host machine: cython (cython 3.1.3)
Host machine cpu family: arm
Host machine cpu: armv7l
Program python found: YES (/opt/app/venv/bin/python)
../pandas/meson.build:1:15: ERROR: Command `/opt/app/venv/bin/python -c '
import os
import numpy as np
try:
# Check if include directory is inside the pandas dir
# e.g. a venv created inside the pandas dir
# If so, convert it to a relative path
incdir = os.path.relpath(np.get_include())
except Exception:
incdir = np.get_include()
print(incdir)
'` failed with status 1.
A full log can be found at /tmp/pip-install-y9j9k_v2/pandas_d677fcd2c13643ff8c24a90c0a9f811f/.mesonpy-uutfurzj/meson-logs/meson-log.txt
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
error: metadata-generation-failed
× Encountered error while generating package metadata.
╰─> See above for output.
note: This is an issue with the package mentioned above, not pip.
hint: See above for details.
Tried 2.1.4 which worked fine on Debian Bookworm:
Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
Requirement already satisfied: python-can==4.3.1 in ./venv/lib/python3.13/site-packages (from -r requirements.txt (line 1)) (4.3.1)
Collecting pandas==2.1.4 (from -r requirements.txt (line 2))
Downloading pandas-2.1.4.tar.gz (4.3 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 4.3/4.3 MB 6.6 MB/s 0:00:00
Installing build dependencies ... done
Getting requirements to build wheel ... done
Installing backend dependencies ... done
Preparing metadata (pyproject.toml) ... error
error: subprocess-exited-with-error
× Preparing metadata (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [31 lines of output]
+ meson setup /tmp/pip-install-lpm0348t/pandas_049cc42ad8234edf931488590a6d6657 /tmp/pip-install-lpm0348t/pandas_049cc42ad8234edf931488590a6d6657/.mesonpy-lko771pl/build -Dbuildtype=release -Db_ndebug=if-release -Db_vscrt=md --vsenv --native-file=/tmp/pip-install-lpm0348t/pandas_049cc42ad8234edf931488590a6d6657/.mesonpy-lko771pl/build/meson-python-native-file.ini
The Meson build system
Version: 1.2.1
Source dir: /tmp/pip-install-lpm0348t/pandas_049cc42ad8234edf931488590a6d6657
Build dir: /tmp/pip-install-lpm0348t/pandas_049cc42ad8234edf931488590a6d6657/.mesonpy-lko771pl/build
Build type: native build
Project name: pandas
Project version: 2.1.4
C compiler for the host machine: cc (gcc 14.2.0 "cc (Raspbian 14.2.0-19+rpi1) 14.2.0")
C linker for the host machine: cc ld.bfd 2.44
C++ compiler for the host machine: c++ (gcc 14.2.0 "c++ (Raspbian 14.2.0-19+rpi1) 14.2.0")
C++ linker for the host machine: c++ ld.bfd 2.44
Cython compiler for the host machine: cython (cython 0.29.37)
Host machine cpu family: arm
Host machine cpu: armv7l
Program python found: YES (/opt/app/venv/bin/python)
../../pandas/meson.build:1:15: ERROR: Command `/opt/app/venv/bin/python -c '
import os
import numpy as np
try:
# Check if include directory is inside the pandas dir
# e.g. a venv created inside the pandas dir
# If so, convert it to a relative path
incdir = os.path.relpath(np.get_include())
except Exception:
incdir = np.get_include()
print(incdir)
'` failed with status 1.
A full log can be found at /tmp/pip-install-lpm0348t/pandas_049cc42ad8234edf931488590a6d6657/.mesonpy-lko771pl/build/meson-logs/meson-log.txt
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
error: metadata-generation-failed
× Encountered error while generating package metadata.
╰─> See above for output.
note: This is an issue with the package mentioned above, not pip.
hint: See above for details.
Tried main Branch:
Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
Collecting pandas@ git+https://github.com/pandas-dev/pandas@main (from -r requirements.txt (line 4))
Cloning https://github.com/pandas-dev/pandas (to revision main) to /tmp/pip-install-q7i1opum/pandas_0a4fefd97257431fa2c67332ca1aa7e0
Running command git clone --filter=blob:none --quiet https://github.com/pandas-dev/pandas /tmp/pip-install-q7i1opum/pandas_0a4fefd97257431fa2c67332ca1aa7e0
Resolved https://github.com/pandas-dev/pandas to commit 3940df8255ed04db0089e66ce09a4c986b97cac4
Installing build dependencies ... done
Getting requirements to build wheel ... done
Installing backend dependencies ... done
Preparing metadata (pyproject.toml) ... error
error: subprocess-exited-with-error
× Preparing metadata (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [34 lines of output]
+ meson setup /tmp/pip-install-q7i1opum/pandas_0a4fefd97257431fa2c67332ca1aa7e0 /tmp/pip-install-q7i1opum/pandas_0a4fefd97257431fa2c67332ca1aa7e0/.mesonpy-nyba67pb -Dbuildtype=release -Db_ndebug=if-release -Db_vscrt=md --vsenv --native-file=/tmp/pip-install-q7i1opum/pandas_0a4fefd97257431fa2c67332ca1aa7e0/.mesonpy-nyba67pb/meson-python-native-file.ini
The Meson build system
Version: 1.8.3
Source dir: /tmp/pip-install-q7i1opum/pandas_0a4fefd97257431fa2c67332ca1aa7e0
Build dir: /tmp/pip-install-q7i1opum/pandas_0a4fefd97257431fa2c67332ca1aa7e0/.mesonpy-nyba67pb
Build type: native build
Project name: pandas
Project version: 3.0.0.dev0+2322.g3940df8255
C compiler for the host machine: cc (gcc 14.2.0 "cc (Raspbian 14.2.0-19+rpi1) 14.2.0")
C linker for the host machine: cc ld.bfd 2.44
C++ compiler for the host machine: c++ (gcc 14.2.0 "c++ (Raspbian 14.2.0-19+rpi1) 14.2.0")
C++ linker for the host machine: c++ ld.bfd 2.44
Cython compiler for the host machine: cython (cython 3.1.3)
Host machine cpu family: arm
Host machine cpu: armv7l
Program python found: YES (/opt/app/venv/bin/python)
Program cython found: YES (/tmp/pip-build-env-es6_6v3v/overlay/bin/cython)
Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1
Run-time dependency python found: YES 3.13
../pandas/meson.build:1:15: ERROR: Command `/opt/app/venv/bin/python -c '
import os
import numpy as np
try:
# Check if include directory is inside the pandas dir
# e.g. a venv created inside the pandas dir
# If so, convert it to a relative path
incdir = os.path.relpath(np.get_include())
except Exception:
incdir = np.get_include()
print(incdir)
'` failed with status 1.
A full log can be found at /tmp/pip-install-q7i1opum/pandas_0a4fefd97257431fa2c67332ca1aa7e0/.mesonpy-nyba67pb/meson-logs/meson-log.txt
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
error: metadata-generation-failed
× Encountered error while generating package metadata.
╰─> See above for output.
note: This is an issue with the package mentioned above, not pip.
hint: See above for details.
Unfortunately there is no Log at all. Not even the Root Folder essentially:
(venv) USER@HOST:/opt/app $ ls -l /tmp/pip-install-q7i1opum/pandas_0a4fefd97257431fa2c67332ca1aa7e0/.mesonpy-nyba67pb/meson-logs/meson-log.txt
ls: cannot access '/tmp/pip-install-q7i1opum/pandas_0a4fefd97257431fa2c67332ca1aa7e0/.mesonpy-nyba67pb/meson-logs/meson-log.txt': No such file or directory
(venv) USER@HOST:/opt/app $ ls -l /tmp/pip-install-q7i1opum
ls: cannot access '/tmp/pip-install-q7i1opum': No such file or directory
Similar story for the other Versions tried (2.1.4 and 2.3.1).
System Information: - Python 3.13.5
/etc/os-release:
PRETTY_NAME="Raspbian GNU/Linux 13 (trixie)"
NAME="Raspbian GNU/Linux"
VERSION_ID="13"
VERSION="13 (trixie)"
VERSION_CODENAME=trixie
DEBIAN_VERSION_FULL=13.0
ID=raspbian
ID_LIKE=debian
HOME_URL="http://www.raspbian.org/"
SUPPORT_URL="http://www.raspbian.org/RaspbianForums"
BUG_REPORT_URL="http://www.raspbian.org/RaspbianBugs"
cat /proc/cpuinfo:
processor : 0
model name : ARMv7 Processor rev 4 (v7l)
BogoMIPS : 76.80
Features : half thumb fastmult vfp edsp neon vfpv3 tls vfpv4 idiva idivt vfpd32 lpae evtstrm crc32
CPU implementer : 0x41
CPU architecture: 7
CPU variant : 0x0
CPU part : 0xd03
CPU revision : 4
processor : 1
model name : ARMv7 Processor rev 4 (v7l)
BogoMIPS : 76.80
Features : half thumb fastmult vfp edsp neon vfpv3 tls vfpv4 idiva idivt vfpd32 lpae evtstrm crc32
CPU implementer : 0x41
CPU architecture: 7
CPU variant : 0x0
CPU part : 0xd03
CPU revision : 4
processor : 2
model name : ARMv7 Processor rev 4 (v7l)
BogoMIPS : 76.80
Features : half thumb fastmult vfp edsp neon vfpv3 tls vfpv4 idiva idivt vfpd32 lpae evtstrm crc32
CPU implementer : 0x41
CPU architecture: 7
CPU variant : 0x0
CPU part : 0xd03
CPU revision : 4
processor : 3
model name : ARMv7 Processor rev 4 (v7l)
BogoMIPS : 76.80
Features : half thumb fastmult vfp edsp neon vfpv3 tls vfpv4 idiva idivt vfpd32 lpae evtstrm crc32
CPU implementer : 0x41
CPU architecture: 7
CPU variant : 0x0
CPU part : 0xd03
CPU revision : 4
Hardware : BCM2835
Revision : a02082
Serial : 000000003cad014e
Model : Raspberry Pi 3 Model B Rev 1.2
raspinfo:
System Information
------------------
Raspberry Pi 3 Model B Rev 1.2
PRETTY_NAME="Raspbian GNU/Linux 13 (trixie)"
NAME="Raspbian GNU/Linux"
VERSION_ID="13"
VERSION="13 (trixie)"
Raspberry Pi reference 2023-10-10
Generated using pi-gen, https://github.com/RPi-Distro/pi-gen, fb56ad562991cf3ae5c96ab50983e1deeaefc7b6, stage2
Linux HOST 6.12.34+rpt-rpi-v7 #1 SMP Raspbian 1:6.12.34-1+rpt1 (2025-06-26) armv7l GNU/Linux
Revision : a02082
Serial : 000000003cad014e
Model : Raspberry Pi 3 Model B Rev 1.2
Throttled flag : throttled=0x20000
Camera : supported=0 detected=0, libcamera interfaces=0
Comment From: luckylinux
Seems that some of the Errors could be due to the the OOM Killer.
I fail to see why that would happen though. Granted RAM is only 1GB (but it did build before, like ~ 1.5 Years ago or so). And I also allocated 8GB SWAP to make sure that there would be no Edge Cases 😕.
Anyways, in most cases it fails at the metadata Generation Stage already 😕, so it's NOT a Memory Issue then.