Format error on paired end names!

[rgarcia27]

Hi, I'm trying to run deconaMiner. The data I'm using is paired-end and in fastq format but as the manual says I merged the two fastqs. The problem is that when I try to run filterBlastInfo.sh I get this error

Format error on paired end names! Paired end should be numbered as xxx/1 and xxx/2 where xxx is the name of the query

I don't know if I'm merging the fastqs wrong or something, could you help me please?

Thanks!

[amarinderthind]

Please print the header of your fastq file... and check.

Decontaminer expects the following format:

@A00121:137:HTLF3DSXX:3:1110:3097:35571/1
@A00121:137:HTLF3DSXX:3:1110:3097:35571/2

If you have other format (such as mentioned in example below) of PR reads, you can rename/change from this to the required one using simple linux command mention at the end.

@A00121:137:HTLF3DSXX:3:1110:3097:35571 0:N: 00
@A00121:137:HTLF3DSXX:3:1110:3097:35571 1:N: 00

for this case on Linux terminal

sed 's/ 0:N:0://1/g' inputfile > outputfile
sed 's/ 1:N:0://2/g' inputfile > outputfile

Should work...