Question: Galaxy Cloud: Location Of Imported And Converted Fastq'S
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gravatar for p Vedell
4.9 years ago by
p Vedell10
p Vedell10 wrote:
Hi, I had fastq.gz files in an Amazon S3 bucket. I created a Galaxy on the Cloud instance using CloudMan. I used GetData and pasted in the url's of the fastq.gz files into Galaxy on the Cloud. They were successfully imported into the session and converted to fastq's, it seems. However, at the next step (fastq groomer), Galaxy on the Cloud appears to expect that the imported and converted fastq files are in the same S3 bucket where the fastq.gz files were. But, they are not there. I read somewhere in documentation or notes that the data is actually in /mnt/galaxyData folder. However, I am not sure how to point fastq groomer to this place in the web interface or alternatively, I am not sure how to move the fastq's back to the s3 bucket (w/o downloading and re-uploading which would be very time-consuming). Thanks for any help you can provide. PT
galaxy • 832 views
ADD COMMENTlink modified 4.9 years ago by Dannon Baker270 • written 4.9 years ago by p Vedell10
0
gravatar for Dannon Baker
4.9 years ago by
Dannon Baker270
United States
Dannon Baker270 wrote:
Hi PT, What exactly do you mean by "Galaxy on the Cloud appears to expect that the imported and converted fastq files are in the same S3 bucket where the fastq.gz files were"? Once imported from S3, you're correct in that everything will be on the local EBS volume. -Dannon
ADD COMMENTlink written 4.9 years ago by Dannon Baker270
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