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segaling_repeat_masker still crashes #54
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I'm coming across the same issue using 2xA100 GPUs running segaling_repeat_masker on
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@RenzoTale88 This version of SegAlign (github.com/gsneha26/SegAlign) is broken and, sadly, doesn't seem to be maintained anymore. You may have more luck with the fork that Cactus uses, which can be found here: https://github.com/ComparativeGenomicsToolkit/SegAlign (in addition to the Cactus release GPU docker images). Even this fork has some overflow issues, but it works on most data. |
@glennhickey thanks for the quick reply, I have been trying also with the second repository, but came across the same issue. I can open a second ticket on the cactus github page if you prefer? |
Did you try the commit that cactus uses? I only just merged it into master. If you did not use that commit (or the current master as of 10 minutes ago), you would see the same error. |
Just cloned the repo and currently compiling it. I'll come back on this, thanks! |
@glennhickey still coming across this issue:
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I will get it fixed by the end of the week. |
This is the same command line and overall dataset as #53. While the patch for #53 worked and let most genomes go through (thanks!), there's still at least one problem. I will share the inputs offline, but the error message is
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