Question: HISAT2 errors with fastq input -- double check input formatting/content
gravatar for kdong
6 months ago by
kdong0 wrote:

Hi everyone!

I am new in RNA-seq research and try to use galaxy main to analysis my data.

I met the error when running HISAT2, it said my file does not look like FASTQ but my datatype is fastqsanger and the file name is "fastq.gz". I have tried several times but it all looks like this. Please let me know if you have any suggestions!

error report: Error: reads file does not look like a FASTQ file terminate called after throwing an instance of 'int' (ERR): hisat2-align died with signal 6 (ABRT) (core dumped)

Thank you very much! I appreciate!


ADD COMMENTlink modified 6 months ago by Jennifer Hillman Jackson25k • written 6 months ago by kdong0
gravatar for Jennifer Hillman Jackson
6 months ago by
United States
Jennifer Hillman Jackson25k wrote:


It looks like you worked out the content or format problems and have successful jobs now.

For others that may run into a similar problem, start troubleshooting by checking that your fastq data was completely uploaded and assigned the proper datatype. Support FAQs:

Thanks! Jen, Galaxy team

ADD COMMENTlink written 6 months ago by Jennifer Hillman Jackson25k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 165 users visited in the last hour