Question: Do not want fastq.gz file to be unziped by galaxy automatically.
0
gravatar for neerajrana14
4.2 years ago by
neerajrana14 • 40
Germany
neerajrana14 • 40 wrote:

Hi 

I am developing one wrapper for my local galaxy server. My tools take fastq.gz format as input and run on shell script and give out put.

But in galaxy whenever i am using fastq.gz file ,galaxy convert it into fastq format automatically.So my tool does not find a input as fastq.gz.

I do not want any change in fastq.gz so that it can be taken directly as such by tool .

Please help if there is any solution for it .

Thank you. 

gzip inputs galaxy tools datasets • 2.4k views
ADD COMMENT • link • modified 4.2 years ago • written 4.2 years ago by neerajrana14 • 40
4
gravatar for neerajrana14
4.2 years ago by
neerajrana14 • 40
Germany
neerajrana14 • 40 wrote:

Hello Jen,

Thanks for your reply.That option can be added to galaxy.I found solution here.It might be useful for others.I am sharing link here.

https://www.e-biogenouest.org/wiki/ManArchiveGalaxy

Thank you,

Neeraj.

ADD COMMENT • link written 4.2 years ago by neerajrana14 • 40
1

great, that's exactly what I was looking for!

ADD REPLY • link written 3.8 years ago by l.p.pryszcz • 10
1
gravatar for Jennifer Hillman Jackson
4.2 years ago by
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Uncompressed datasets are a requirement at this time, although this is a development enhancement planned for the future.

The dev team or community will correct me if this has already been implemented for local instances, or there is a work-around to share.

Best, Jen, Galaxy team

ADD COMMENT • link written 4.2 years ago by Jennifer Hillman Jackson ♦ 25k
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