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Multicore support for additional options (as per #270)? #391

eboyden opened this issue Jul 27, 2019 · 2 comments


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commented Jul 27, 2019

Wondering if multicore support for the options below is still being actively worked on (particularly --untrimmed-output and --untrimmed-paired-output), as mentioned in #270

ERROR: Running in parallel is currently not supported for the given combination of command-line parameters.
These options are not supported: --info-file, --rest-file, --wildcard-file, --untrimmed-output, --untrimmed-paired-output, --too-short-output, --too-short-paired-output, --too-long-output, --too-long-paired-output, --format
Also, demultiplexing is not supported.


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commented Aug 9, 2019

I can try to work on this as one of the next features. I was initially hoping to get a general solution in place so all the options would work, but will probably not have time for that. However, just adding support for --untrimmed-output/--untrimmed-paired-output should not be hard.

@marcelm marcelm closed this in 0e963b9 Aug 21, 2019


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commented Aug 21, 2019

These options are now supported (in the development version):

  • --untrimmed-output, --untrimmed-paired-output
  • --too-long-output, --too-long-paired-output
  • --too-short-output, --too-short-paired-output
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