Maybe its the same issue as posted here?
https://biostar.usegalaxy.org/p/3877/#3879

"The datatype for your dataset must be set to fastqsanger"

Stef

----- Original message ----- From: "Xiong, Min," <mxio...@cmh.edu> To:
"galaxy-dev@lists.galaxyproject.org"
<galaxy-dev@lists.galaxyproject.org> Subject: [galaxy-dev] BWA alignment
problem in Galaxy Date: Wed, 11 Feb 2015 12:10:12 -0600

Hi,


When I use BWA alignment, FASTQ file can't be detected. What
reason cause it?


The attached file contains figure from galaxy, you will see I have good
fastq file which can be reported by FastQC.





Thanks





Min Xiong, Ph.D.


Post-doctoral Fellow


Shui Q. Ye Lab Group


Division of Experimental and Translational Genetics


Department of Pediatrics


Children's Mercy Hospital


2401 Gillham Road


Kansas City, MO 64108









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