cuffnorm_XS_attribute_Error

[woker]

Hello,

I have single end RNA-seq data downloaded from SRA. This RNAseq data lacks XS tag. I manually inserted XS tag by bamutils tool.

After adding XS tags, I still get the following lines:

Warning: Your version of Cufflinks is not up-to-date. It is recommended that you ecent features and bug fixes (http://cufflinks.cbcb.umd.edu).
[20:17:43] Loading reference annotation.
[20:17:50] Inspecting maps and determining fragment length distributions.
BAM record error: found spliced alignment without XS attribute
BAM record error: found spliced alignment without XS attribute

How could I solve the problem about "BAM record error..." ?

cufflinks version is 2.2.0.

[TiborNagy]

I suggest extract reads from the BAM file and run the whole pipeline. Or use this trick:

http://seqanswers.com/forums/showthread.php?t=4704