I downloaded an SRA file from GEO FTP. I then ran the following command trying to grab the fastq files, but I keep coming up with this error and I can't find anything about it on google.
Here's the command used:
fastq-dump --split-3 '/path/to/SRR1460694.sra'
fastq-dump.2.5.7 err: connection inconsistent while validating within network system module - failed
I am behind a network firewall, but I have my proxy set up in by .bash_profile so I don't usually ever run into problems downloading, or updating software. I'm not sure what to do at this point. Any ideas?
If you got the data from EBI then why bother with SRA files. Just get the fastq files directly from ENA-EBI. Links for them should be on the page you get to after you search for the SRA # you need.
Sorry, EBI was incorrect, I got the SRA files from GEO.
Then get the fastq from ENA-EBI.
They sadly do not appear to have any fastq files for download.