samtools mpileup error

[figo1019]

Hi all,

i am trying to call snp's using mpileup command in samtools and i got the following error, could anyone give your suggestions to fix this!!


incorrect number of fields (4 != 5) at 4:53820987

Hello Meher

I am also getting a similar problem using the mpile up, have you sorted out this problem?

Regards

[meher]

so should i regenerate the file. But, with this file i have generated output using mpileup when i did for the first time, for some reason it showed this error when using it for the second time.

[swbarnes2]

The usual answer is that your .bam file is truncated.

[meher]

Hi all,

i am trying to call snp's using mpileup command in samtools and i got the following error, could anyone give your suggestions to fix this!!


incorrect number of fields (4 != 5) at 4:53820987