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Augustus new species training

Hi ! I am trying to train augustus for glycine and I am following the steps you have mentioned.

While using gff2gbSmallDNA.pl, I am getting error Couldn't open gff.

While using autoAug.pl following error:

Error: The environment variable AUGUSTUS_CONFIG_PATH is not define

Can any one help me with this?

gene-prediction ngs augustus
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updated by Ram Ram • written by #### ####

1 answer

The error tells you exactly what the problem is, you need to define that variable to point to the "config" directory. For example,

export AUGUSTUS_CONFIG_PATH=/my_path_to_AUGUSTUS/config

If you put that in your shell script before you call the Perl script it will work, as long as you provide the correct arguments (which is not clear from your post).

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written by SES SES

Thank you SES ... I have set the config path inside the perl script I have used. Its working fine as of now.

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written by #### ####

It worked for me:

export AUGUSTUS_CONFIG_PATH=/path/augustus/config export PATH=$PATH: =/path/augustus/bin

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written by victorcana1991 • victorcana1991

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