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Output error message for pooled assembly of single-end reads #54

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kmnip opened this issue Aug 9, 2023 · 0 comments
Open
3 tasks done

Output error message for pooled assembly of single-end reads #54

kmnip opened this issue Aug 9, 2023 · 0 comments
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kmnip commented Aug 9, 2023

Please report

  • version of RNA-Bloom with java -jar RNA-Bloom.jar -version
    2.0.1
  • version of java with java -version
    20
  • exact command used to run RNA-Bloom
    rnabloom -pool readslist.txt

If an input readslist file for the -pool option contains only single-end reads, stage 1 will still run to the end.

Technically, RNA-Bloom should exit with an error indicating "pooled assembly of single-end reads is not supported."
I can also emphasize this (and explain why) in the readme section for -pool option:
https://github.com/bcgsc/RNA-Bloom#file-format-for-the--pool-option

@kmnip kmnip added the bug Something isn't working label Aug 9, 2023
@kmnip kmnip self-assigned this Aug 9, 2023
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