Can you provide more details - in particular the version of Galaxy you
are running? A step-by-step description of how you did the data import
might be useful too for the Galaxy team to try to reproduce this.
On Fri, Mar 18, 2016 at 5:34 PM, Fabien Mareuil <fmareuil(a)pasteur.fr> wrote:
Thank a lot for this information, I didn't found this option for the new
version of the Data Libraries.
This could explain why there is this conversion.
I tested it with an automatic format detection and when I set explicitly the
format but in the two cases a tab was added.
Le 18/03/2016 17:04, Peter Cock a écrit :
> Hi Fabien,
> There is a Galaxy upload option to turn spaces into tabs, useful for
> tables of data. Is that being ticked by mistake? That would explain
> this problem.
> Also I would check if the FASTQ file format is being detected
> automatically, or set explicitly (e.g. fastqsanger)? Doing that ought
> to prevent any changes.
> On Fri, Mar 18, 2016 at 3:26 PM, Fabien Mareuil <fmareuil(a)pasteur.fr>
>> We got a problem with the new version of Data libraries. When we upload a
>> fastq file from a User Directory, a tabulation character is added in the
>> header in replacement of a space character.
>> from @HWI-D00395:188:HYGNFADXX:2:1108:1315:1965 1:N:0:ATGAGC to
>> @HWI-D00395:188:HYGNFADXX:2:1108:1315:1965 1:N:0:ATGAGC
>> This behavior causes an error with cutadapt 1.6 (maybe with other tools)
>> because it doesn't work with tab character. With the direct upload tool
>> the deprecated version of Data Libraries no tab character is added. Do
>> have some idea to correct this problem? Thanks a lot Best regards --
>> Fabien Mareuil | Centre d'Informatique pour la Biologie
>> fabien.mareuil(a)pasteur.fr | Institut Pasteur 25,28 rue du Docteur Roux
>> Paris, France
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