[Bioperl-l] Error with "parse_entrez_gene_example.pl Sus_scrofa.ags"

Stefan Kirov stefan.kirov at bms.com
Fri Apr 11 15:59:29 EDT 2008


AGS is a binary ASN.1 format and WILL NOT be parsed! You have to use 
gene2xml( weird, but this is NCBI) with these flags: -c -x -b -i. This 
will spit out text ASN which can be parsed.
Stefan

On Wed, 9 Apr 2008, zoujing wrote:

>
>   I am a geen hand in Bioperl. When I run perl with
> "parse_entrez_gene_example.pl Sus_scrofa.ags", it turned out the error
> information:
>     Data Error: none conforming data found on line 1 in Sus_scrofa.ags.
>
>   But the Sus_scrofa.ags is download from NCBI, with the format of ASN1,
> should be the same as Homo_sapiens in the example. So it should be no error
> as the code is the example from Mingyi.
>   I wonder why this happen, and should I change something about the file?
>
> -- 
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>
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