Re: [Gusdev-gusdev] InsertNewExternalSequences / insert of DNA sequences

[Thomas O. <th...@gm...>]

Hello,

just saw, that I asked this once - and found the solution - here an exemple:
ga GUS::Common::Plugin::InsertNewExternalSequences
--external_database_release_id=333 --sequencefile=/seq/Tcruziklein.fasta
--table_name=DoTS::ExternalNASequence --regex_source_id="gi\|(\w+)\|(.*)" -regex_secondary_id="gb\|(\w+)"
--regex_name="\| (.+)$" --writeFile=/seq/insertCruzi.log --commit

Important is the --regex_source_id=">gi\|(\w+)\|" to get the ID of the
sequence... --regex_source_id=">name\|(\w+)" will work too.

I hope, it might help,
Thomas

> Hey everybody,
> 
> I wanted to know, if the bug in the InsertNewExternalSequences.pm is
> fixed,
> or I did an error in the usage...
> Maybe just give me a workaround to insert my DNA sequences in the DB with
> a
> perl modul.
> 
> Thanks,
> 
> Thomas
> 
> 
> 
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