opengate_tests unable to run on cluster

[vanhoesens]

My apologies if this was addressed elsewhere but I couldn't find it. I am installing gate on a research cluster. The downloads and everything work fine and opengate_info gives the following information:

Python version   3.10.16 (main, Dec 11 2024, 16:24:50) [GCC 11.2.0]
Platform         linux
Site package     /home/sarah.vanhoesen-umw/miniconda3/envs/gate_env/lib/python3.10/site-packages
Geant4 version   geant4-11-03 [MT]
Geant4 MT        True
Geant4 Qt        True 5.9.7
Geant4 GDML      True
Geant4 date      6-December-2024
Geant4 data      /home/sarah.vanhoesen-umw/miniconda3/envs/gate_env/lib/python3.10/site-packages/opengate_core/geant4_data
ITK version      5.2.1
GATE version     10.0.2
GATE folder      /home/sarah.vanhoesen-umw/miniconda3/envs/gate_env/lib/python3.10/site-packages/opengate
GATE data        /home/sarah.vanhoesen-umw/miniconda3/envs/gate_env/lib/python3.10/site-packages/opengate/data
GATE tests       /home/sarah.vanhoesen-umw/miniconda3/envs/gate_env/lib/python3.10/site-packages/opengate/tests/src
GATE core path   /home/sarah.vanhoesen-umw/miniconda3/envs/gate_env/lib/python3.10/site-packages/opengate_core/opengate_core.cpython-310-x86_64-linux-gnu.so
GATE date        2025-03-25T16:13:28 (pypi)

However, when I try to run opengate_tests I get this message:

Detected Geant4 version: geant4-11-03 [MT]
Required Geant4 version: v11.3.0
Geant4 version is OK
Looking for tests in: /home/sarah.vanhoesen-umw/miniconda3/envs/gate_env/lib/python3.10/site-packages/opengate/tests/src
No Opengate test data available in: /home/sarah.vanhoesen-umw/miniconda3/envs/gate_env/lib/python3.10/site-packages/opengate/tests/data
I download it for you.
Download attempt 1 failed: 404 Client Error: Not Found for url: https://gitlab.in2p3.fr/api/v4/projects/15155/jobs/1155510/artifacts
Retrying in 10 seconds...
Download attempt 2 failed: 404 Client Error: Not Found for url: https://gitlab.in2p3.fr/api/v4/projects/15155/jobs/1155510/artifacts
Retrying in 10 seconds...
Download attempt 3 failed: 404 Client Error: Not Found for url: https://gitlab.in2p3.fr/api/v4/projects/15155/jobs/1155510/artifacts
Retrying in 10 seconds...
Download attempt 4 failed: 404 Client Error: Not Found for url: https://gitlab.in2p3.fr/api/v4/projects/15155/jobs/1155510/artifacts
Retrying in 10 seconds...
Download attempt 5 failed: 404 Client Error: Not Found for url: https://gitlab.in2p3.fr/api/v4/projects/15155/jobs/1155510/artifacts
Exceeded maximum retries for https://gitlab.in2p3.fr/api/v4/projects/15155/jobs/1155510/artifacts.

I did verify that the test files are present in the correct folder. Any help would be greatly appreciated.

[tbaudier]

Hello @vanhoesens

I can see you are using version 10.0.2 instead of the latest version 10.1.0, is there any reason?
The error concerns the downloading of the data for the tests. I'm not sure but maybe the version needed is too old and the archive is not available anymore. You can still have access to the data with the gitlab: https://gitlab.in2p3.fr/opengamgate/gam_tests_data/-/tree/637e39f0751bb475e537edb48de4ae5e5dc3bd38
You can download the zip archive (click on Code/zip) and extract everything under /home/sarah.vanhoesen-umw/miniconda3/envs/gate_env/lib/python3.10/site-packages/opengate/data/

[vanhoesens]

Thanks for the quick response! I do not know why it is showing as an older version instead of 10.1.0. I initially installed opengate some months ago but recently picked the project I was working on back up. I ran 'pip install --upgrade opengate' just before running opengate_info so I assumed it would be updated.
I will get that data downloaded manually and see how things go.
Thanks!

[vanhoesens]

I could not get the opengate version to update to 10.1.0 so I uninstalled to try everything fresh. Now I am getting an error about conflicting dependencies when I try to run 'pip install opengate'. I am not entirely sure why it is looking at older opengate versions at all to determine the dependencies, but I am not specifying a specific version in my install so the advice from the dependency resolution page is not super helpful.

Collecting opengate
  Using cached opengate-10.1.0-py3-none-any.whl.metadata (5.1 kB)
Collecting colored>1.5 (from opengate)
  Using cached colored-2.3.2-py3-none-any.whl.metadata (4.5 kB)
INFO: pip is looking at multiple versions of opengate to determine which version is compatible with other requirements. This could take a while.
Collecting opengate
  Using cached opengate-10.0.3-py3-none-any.whl.metadata (14 kB)
  Using cached opengate-10.0.2-py3-none-any.whl.metadata (14 kB)
  Using cached opengate-10.0.1-py3-none-any.whl.metadata (14 kB)
  Using cached opengate-10.0.0-py3-none-any.whl.metadata (14 kB)
  Using cached opengate-0.7.3-py3-none-any.whl.metadata (3.3 kB)
  Using cached opengate-0.7.2-py3-none-any.whl.metadata (3.3 kB)
  Using cached opengate-0.7.1-py3-none-any.whl.metadata (3.2 kB)
INFO: pip is still looking at multiple versions of opengate to determine which version is compatible with other requirements. This could take a while.
  Using cached opengate-0.7.0-py3-none-any.whl.metadata (3.2 kB)
  Using cached opengate-0.6.0-py3-none-any.whl.metadata (3.0 kB)
ERROR: Cannot install opengate==0.6.0, opengate==0.7.0, opengate==0.7.1, opengate==0.7.2, opengate==0.7.3, opengate==10.0.0, opengate==10.0.1, opengate==10.0.2, opengate==10.0.3 and opengate==10.1.0 because these package versions have conflicting dependencies.

The conflict is caused by:
    opengate 10.1.0 depends on opengate-core==10.1.0
    opengate 10.0.3 depends on opengate-core==10.0.3
    opengate 10.0.2 depends on opengate-core==10.0.2
    opengate 10.0.1 depends on opengate-core==10.0.1
    opengate 10.0.0 depends on opengate-core==10.0.0
    opengate 0.7.3 depends on opengate-core==0.7.3
    opengate 0.7.2 depends on opengate-core==0.7.2
    opengate 0.7.1 depends on opengate-core==0.7.1
    opengate 0.7.0 depends on opengate-core==0.7.0
    opengate 0.6.0 depends on opengate-core==0.6.0

Additionally, some packages in these conflicts have no matching distributions available for your environment:
    opengate-core

To fix this you could try to:
1. loosen the range of package versions you've specified
2. remove package versions to allow pip to attempt to solve the dependency conflict

ERROR: ResolutionImpossible: for help visit https://pip.pypa.io/en/latest/topics/dependency-resolution/#dealing-with-dependency-conflicts

This is the output when I run 'conda list' to make sure everything else is as it should be.

# packages in environment at /home/sarah.vanhoesen-umw/miniconda3/envs/gateenviron:
#
# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                        main
_openmp_mutex             5.1                      52_gnu
bzip2                     1.0.8                h5eee18b_6
ca-certificates           2026.5.14            h06a4308_0
ld_impl_linux-64          2.44                 h9e0c5a2_3
libexpat                  2.8.1                h7354ed3_0
libffi                    3.4.8                hc5d346e_2
libgcc                    15.2.0               h69a1729_8
libgcc-ng                 15.2.0               h166f726_8
libmpdec                  4.0.0                h5eee18b_0
libstdcxx                 15.2.0               h39759b7_8
libuuid                   1.41.5               h5eee18b_0
libxcb                    1.17.0               h9b100fa_0
libzlib                   1.3.1                h47b2149_1
ncurses                   6.5                  h7934f7d_0
openssl                   3.5.6                h1b28b03_0
packaging                 26.0            py313h06a4308_0
pip                       26.1.2                   pypi_0    pypi
pthread-stubs             0.3                  h0ce48e5_1
python                    3.13.13         hb7b561f_100_cp313
python_abi                3.13                    3_cp313
readline                  8.3                  hc2a1206_0
setuptools                82.0.1          py313h06a4308_0
sqlite                    3.51.2               h3e8d24a_0
tk                        8.6.15               h54e0aa7_0
tzdata                    2026b                he532380_0
wheel                     0.46.3          py313h06a4308_0
xorg-libx11               1.8.12               h9b100fa_1
xorg-libxau               1.0.12               h9b100fa_0
xorg-libxdmcp             1.1.5                h9b100fa_0
xorg-xorgproto            2024.1               h5eee18b_1
xz                        5.8.2                h448239c_0
zlib                      1.3.1                h47b2149_1

[tbaudier]

Hello,

What are the characteristics of of your machine? To be able to install version 10.1.0 you need at least glibc 2.34 (mandatory for qt6)

[vanhoesens]

I was able to contact the cluster administrators and the glibc version is indeed the problem. They have said that it is not trivial to upgrade (the cluster is using glibc 2.28-251). Would an older version of opengate be feasible with that glibc version (and consequently an older version of qt6)?
Thanks for all the help so far.

[tbaudier]

At the end of this page (https://opengate-python.readthedocs.io/en/master/user_guide/user_guide_installation.html#how-to-installation) you have the help to install "opengate[novis]" without the qt librairies

[vanhoesens]

When opengate[novis] is installed, should the tests still run normally? opengate-info and opengate-tests are both pointing to missing elements after the novis installation.

[tbaudier]

What is the error?