Question: Prefetch command is not able to download sra file
0
gravatar for patanjal
24 months ago by
patanjal0
patanjal0 wrote:

While trying to download the sra file SRR2079558 using prefetch command, I am receiving this error message. I have already installed sra-toolkit. Could you please suggest something

"theranosis@DESKTOP-B2KQHTU:~$ prefetch SRR2079558
Maximum file size download limit is 20,971,520KB

**2018-04-13T13:14:41 prefetch.2.3.5 err: error unexpected while resolving tree within virtual file system module - failed to resolve accession 'SRR2079558' - Obsolete software. See https://github.com/ncbi/sra-tools/wiki ( 406 )
Redirected!!!
2018-04-13T13:14:42 prefetch.2.3.5 err: name incorrect while evaluating path within network system module - Scheme is 'https'
2018-04-13T13:14:42 prefetch.2.3.5 err: path not found while resolving tree within virtual file system module - 'SRR2079558' cannot be found.**
theranosis@DESKTOP-B2KQHTU:~$"
ADD COMMENTlink modified 23 months ago by Carambakaracho2.0k • written 24 months ago by patanjal0

When possible just get the fastq data directly from EBI-ENA. Like in this case SRR2079558.

ADD REPLYlink modified 24 months ago • written 24 months ago by genomax80k

I could load it without problem. Try upgrading to the current version of the toolkit.

ADD REPLYlink written 24 months ago by ATpoint31k
0
gravatar for Carambakaracho
23 months ago by
Carambakaracho2.0k
Germany/Cologne
Carambakaracho2.0k wrote:

As ATpoint mentioned: an upgrade will fix your problem. The error is clearly stated at the end of the lines:

[...] Obsolete software. See https://github.com/ncbi/sra-tools/wiki ( 406 )

[...] Scheme is 'https'

Follow the provided link for more information

ADD COMMENTlink written 23 months ago by Carambakaracho2.0k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1832 users visited in the last hour