[Bioperl-l] questions on analysising clustalw alignment result files

[Tao Zhu]

Thank you for everyone. In fact I've solved the problem. It was maily 
due to the blanks in the sequence names. In the file "test.aln", the two 
sequences were named as "3R	21150113-21154664" and "3RHet 
2076433-2080968", both of which had a blank inside. If I delete the 
blanks, the script works!

于 2011年07月05日 22:51, Peter Cock 写道:
> On Tue, Jul 5, 2011 at 3:45 PM, Chris Fields<cjfields at illinois.edu>  wrote:
>>
>> The best thing to do in this case is to file a bug for tracking
>> (might be a good thing to have cross-lang bugs in this case, maybe?).
>> Anyway, it's very likely as Peter says, the parser is choking on something
>> and doesn't recognize the file.
>>
>> chris
>
> Good plan Chris.
>
> Tao, please goto http://redmine.open-bio.org/projects/bioperl to file
> a bug. As well as the example output file from your original email,
> could you also include the input file for the alignment, and the
> clustalw2 command line used to create it?
>
> Thanks,
>
> Peter
>


-- 
Tao Zhu, College of Life Sciences, Beijing Normal University, Beijing
100875, China
Email: tzhu at mail.bnu.edu.cn