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Error: unexpected '}' in "}" in latest version (SAIGE_1.4.3) #156

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MCorentin opened this issue Jan 9, 2025 · 0 comments
Open

Error: unexpected '}' in "}" in latest version (SAIGE_1.4.3) #156

MCorentin opened this issue Jan 9, 2025 · 0 comments

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@MCorentin
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Hi,

I get the following error when running step2_SPAtests.R:

[1] "Analysis done! The results have been saved to 'dat_baseQCed_saige.single_variant.tsv'."
Error: unexpected '}' in "}" Execution halted

I am using SAIGE v1.4.3 within a Singularity image built from the docker image:
https://hub.docker.com/r/wzhou88/saige/tags

I tried to check the step2_SPAtests.R script itself but the curly brackets seem fine.

For information, the 'single_variants.tsv' file contains results. The error seems to happen after the file is written.

When running step2_SPAtests.R with the same files but an older version of SAIGE (v1.3.2), I do not get the error.

Please, let me know if you need more information.

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