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### Description of the bug
Running the Sarek pipeline while using Singularity results in the following error: bwa: error while loading shared lib. This issue occurs occasionally when running bwa to…
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# Short Description of the issue
When applying an image like alpine, the singularity fails to run because it does not know it is a docker image.
## Environment
- Operating System: L…
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Currently, payu is being deployed using `conda-pack` to compress a micromamba environment, then moving that file down to gadi and unpacking it in the `vk83` project. Then, using modulefiles to activat…
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@philbucher: Thanks for sharing the first input file with code_aster commands the pythonic way!
Can you share please how do you manage to setup the environment variables to import code_aster in pyt…
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### Steps to reproduce
When building SingularityCE (or Apptainer), the Go package is used as a dependency. The GOPATH environment variable is set by the Go package in
https://github.com/spack/sp…
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Need to prepare docker/singularity image that consists of:
(1) Madgraph5 and Pythia8 (with the ability to run pythia8 via python)
(2) Whizard3
A single image is much better
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can be
- 1 docker image for the entire pipeline
- or a docker image for each process of the pipeline
@Phuong-Le to ask Harry about his experience with multiple docker images in one pipelin…
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FATAL: container creation failed: mount error: can't mount image /proc/self/fd/9: failed to mount squashfs filesystem: invalid argument.
I have python 3.8 and singularity 3.0.3 installed
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Copy logic from https://github.com/common-workflow-language/cwl-utils/blob/e1f35313d8357273ee7a10e54b3d634c3eb6252a/cwl_utils/image_puller.py#L71 (but use the cwltool data structures, not the nice Pyt…
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I git the singularity container of mixer (https://github.com/comorment/mixer). I have installed mixer through singularity (figure shows), but when I run mix.py, the log file noted the version was stil…