GeneMark: inappropriate ioctl for device

Discussions about BRAKER, the automated joint usage of GeneMark and AUGUSTUS.

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katharina
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GeneMark: inappropriate ioctl for device

Post by katharina »

Peter reported to us:
As everything failed with GeneMark, I tried running this program alone:

gmes_petap.pl --ET hints.gff --sequence R.padi_final_genome.v1.fasta --et_score 10

The error came back as:

"inappropriate ioctl for device"
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katharina
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Re: GeneMark: inappropriate ioctl for device

Post by katharina »

Peter reported the following solution:
Google serach:
(http://stackoverflow.com/questions/1605 ... for-device)

which identified this being this problem
GLIBCXX_3.4.20

(http://www.unix.com/shell-programming-a ... evice.html)

How to fix:

http://askubuntu.com/questions/575505/g ... this-error

sudo apt-get install libstdc++6

This didnt update anything as the latest was already intalled.

sudo add-apt-repository ppa:ubuntu-toolchain-r/test
sudo apt-get update
sudo apt-get upgrade
sudo apt-get dist-upgrade

these fixed the problem.
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