galsim on candide

[martinkilbinger]

Sometimes galsim is not working correctly on candide. E.g. import galsim gives error messages;
Dependency check in the pipeline fails with a segmentation fault. Sam, could you have a look, please. See message below the error I get.

[martinkilbinger]

This worked:

conda create --name sp3 python=3.7
conda activate sp3
conda install -c conda-forge galsim
python -c "import galsim; print(galsim.__version__)"

2.2.4

However, using the shapepipe install script:

./install_shapepipe --no-exe --vos --env-name=sp4
conda activate sp4
python -c "import galsim; print(galsim.__version__)"

Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/home/mkilbing/.conda/envs/sp4/lib/python3.7/site-packages/galsim/__init__.py", line 112, in <module>
    from .position import Position, PositionI, PositionD
  File "/home/mkilbing/.conda/envs/sp4/lib/python3.7/site-packages/galsim/position.py", line 19, in <module>
    from . import _galsim
ImportError: /home/mkilbing/.conda/envs/sp4/lib/python3.7/site-packages/galsim/_galsim.cpython-37m-x86_64-linux-gnu.so: undefined symbol: _ZN6galsim11BaseDeviate9serializeEv

[sfarrens]

I was not able to replicate this on macOS, but I was on Candide. So I assume this is an issue with the run path that was recently added. I will investigate and open a PR.

[sfarrens]

@martinkilbinger I am also not able to replicate this on CANFAR. Can you let me know where you encountered this error. So far I can only reproduce it on Candide.

[martinkilbinger]

yes, I only have this error on candide as well. Not sure whether you want more details ? I tried a new instatllation from scratch, in /home/mkilbing/tmp/shapepipe, with conda env test.

[sfarrens]

No, that's fine. I just wanted to know if it was a Candide-specific issue or not.

[sfarrens]

@martinkilbinger OK, I found the issue. The pipeline environment installs Galsim via Conda while MCCD has a pip requirement on Galsim. I will attempt to resolve this.

[sfarrens]

I have opened a PR on the MCCD repo to resolve this.

In the meantime, for an existing ShapePipe environment, all you need to do is:

pip uninstall galsim -y
conda uninstall galsim -y
conda install -c conda-forge galsim -y

[martinkilbinger]

Excellent, this works! Thanks a lot.