Question: SRA file download from NCBI
1
gravatar for 1234anjalianjali1234
2.0 years ago by
India
1234anjalianjali123430 wrote:

Hi,

I am trying to download SRA file from NCBI-SRA database, But unable to locate download option there, I tried using SRA Toolkit but it failed with an error of not finding that file... can anyone suggest me any other option to download those file...

prefetch SRR000001
`Maximum file size download limit is 20,971,520KB

2018-01-19T17:49:37 prefetch.2.3.5 err: error unexpected while resolving tree within virtual file system module - failed to resolve accession 'SRR000001' - Obsolete software. See https://github.com/ncbi/sra-tools/wiki ( 406 )

Redirected!!!

2018-01-19T17:49:38 prefetch.2.3.5 err: name incorrect while evaluating path within network system module - Scheme is 'https'
2018-01-19T17:49:38 prefetch.2.3.5 err: path not found while resolving tree within virtual file system module - 'SRR000001' cannot be found.

kunal@kunal-CELSIUS-M740Bpower:~/Downloads$ fastq-dump -X 5 -Z SRR390728
2018-01-19T17:50:43 fastq-dump.2.3.5 err: error unexpected while resolving tree within virtual file system module - failed to resolve accession 'SRR390728' - Obsolete software. See https://github.com/ncbi/sra-tools/wiki ( 406 )

Redirected!!!

2018-01-19T17:50:44 fastq-dump.2.3.5 err: name incorrect while evaluating path within network system module - Scheme is 'https'
2018-01-19T17:50:44 fastq-dump.2.3.5 err: item not found while constructing within virtual database module - the path 'SRR390728' cannot be opened as database or table`
rna-seq sra file • 2.0k views
ADD COMMENTlink modified 2.0 years ago • written 2.0 years ago by 1234anjalianjali123430
1

Update your sra toolkit . It's too old! https://github.com/ncbi/sra-tools

ADD REPLYlink written 2.0 years ago by Santosh Anand5.0k
1

Get the fastq data directly from EBI-ENA.

ADD REPLYlink written 2.0 years ago by genomax76k

thankyou it worked...

ADD REPLYlink written 2.0 years ago by 1234anjalianjali123430
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