Racon generated an error like "terminate called after throwing an instance of 'std::system_error'"
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3.0 years ago
freddiejung ▴ 30

I am using RACON(https://github.com/isovic/racon) to call consensus sequence of a genome.

I get the following error:

terminate called after throwing an instance of 'std::system_error'
what():  Enable multithreading to use std::thread: Operation not permitted
zsh: abort      racon reads.fq mapped.paf contigs.fasta

I have already installed

  1. gcc 4.8+ and clang 3.4+
  2. cmake 3.2+ to satisfy the Racon requirement.

Is anyone encountering the same problem? What do I have to do?

Thanks.

software error Assembly long-read • 2.0k views
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I would contact the developer directly at https://github.com/isovic/racon/issues and let him know your system (i.e., Ubuntu?) and system version along with what git commit or version of racon your are trying to run. Also what versions of gcc, clang, and cmake you are using. Maybe there is a bug on some systems using pthreads and your version of gcc with the version of racon you compiled.

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Dear jean.elbers,

I contacted the developer followong your advice (https://github.com/isovic/racon/issues/65). It turned out to be a gcc bug and the developer showed a solution.

Best regards, Jung

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