OMA, GOdata/Wget error
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4.5 years ago

I am having an issue trying oma with the "ToyExample" on my server.

I get the errors WARNING: GO data is not present (./.oma//GOdata.drw). Use GOdownload() to obtain it. Error, (in wget) wget failed

Any help would be greatly appreciated.

oma orthologs godownload darwin • 1.6k views
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This is a just hunch based on the error you have reported but it looks like either you don't have wget installed on your system or a firewall between you and where ever OMA is trying to go is preventing wget from connecting.

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4.5 years ago

The error you observed is caused by a ubuntu specific problem. we took the chance to release a bug-fix version (1.1.2). Thanks for reporting.

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Hi!

In trying to work around a DB conversion issue with an array, I tried to use only the -c option, but got the following error: Error, (in ConvertRawFile) Darwin cannot open file /n/sw/fasrcsw/apps/Core/OMA/\ 1.1.2-fasrc01/bin/../bin/../darwinlib/../data/GOdata.drw-20161213 to write to: \ No such file or directory

I tried moving to this folder to find it but couldn't. Any idea on how to fix that? Using the latest 1.1.2

Thanks!

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4.5 years ago

Please make sure that you are using the latest version (currently 1.1.1), which also attempts to use curl if wget in unavailable.

Also, with this latest version, if you don't need function annotations, you can bypass the problem altogether. Just add the following line to your parameter file:

DoGroupFunctionPrediction := false;

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