Closed GallVp closed 3 weeks ago
I see, this is related to https://github.com/oushujun/LTR_retriever/pull/125
This issue was resolved by RepeatMasker on Nov 2, 2022. Please see,
https://github.com/rmhubley/RepeatMasker/commit/3d83626710649d98222da7e0940a756138878fc0
I guess it is safe now to remove the writable file check?
Thank you for checking this out. I have removed this component.
Shujun
Hi @oushujun
Is a writable
$genome
necessary? This can cause problems in pipelines such as Plant-Food-Research-Open/assemblyqc where multiple tools are executed on the same genome. Changing the original file can result in misleading results by the other programs and reduce reproducibility. Thank you!https://github.com/oushujun/LTR_retriever/blob/d4d72a2e3edd0033b9aeb4c54c718ff8e52911d7/LTR_retriever#L312