Question: A problem with download SRA using SRA toolkit
0
gravatar for reza
4 weeks ago by
reza220
Iran
reza220 wrote:

I want to download the SRA using SRA toolkit, so I installed it using this guidance:

https://github.com/ncbi/sra-tools/wiki/Building-and-Installing-from-Source

and then configured it using this guidance:

https://github.com/ncbi/sra-tools/wiki/05.-Toolkit-Configuration

but when I used below command to download SRA:

prefetch Accession_number_of_SRA

I got the below message:

configuration not loaded: no vdb-config found

This sra toolkit installation has not been configured.

Before continuing, please run: vdb-config --interactive

For more information, see https://www.ncbi.nlm.nih.gov/sra/docs/sra-cloud/

Now I need your help to solve this problem.

ADD COMMENTlink written 4 weeks ago by reza220

So did you run vdb-config --interactive?

ADD REPLYlink written 4 weeks ago by ATpoint31k

Yes, this command is vdb-config -i (command for opening configuration window) actually. after configuration, this message will be repeated again and again

ADD REPLYlink written 4 weeks ago by reza220

If you cannot get it to work, then obtain the SRA 'BioProject' ID, and search for this at the ENA (European Nucleotide Archive), where the FASTQ files are typically available for direct download.

ADD REPLYlink written 4 weeks ago by Kevin Blighe56k
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