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bcgsc / RNA-Bloom

:hibiscus: reference-free transcriptome assembly for short and long reads
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can rnabloom run from stage 3? #64

Closed huawen-poppy closed 10 months ago

huawen-poppy commented 10 months ago

Hello! Thanks for your useful tool! I was using the latest RNAbloom to assemble the long-read direct-RNA sequencing data with short-read polishing following the tutorial. But the job was canceled due to time limit in the hpc. I checked the log file, it was in stage 3. I am wondering is there a way to resume the job from stage 3?

Thank you very much.

kmnip commented 10 months ago

RNA-Bloom should be able to start from stage 3 as long as all of the following conditions are satisfied:

  1. Output files from the failed run are not removed.
  2. The exact same command and output directory are re-used.
  3. The -force option is not used. This option would "force" RNA-Bloom to overwrite any existing files and start from scratch.
huawen-poppy commented 10 months ago

I see, thank you!