Can't download files from the ENA (European Nucleotide Archive) site
1
0
Entering edit mode
4 months ago

Does anybody elso have problems with downloading files from the ENA site? I am following a tutorial, https://ena-docs.readthedocs.io/en/latest/retrieval/ena-project.html and trying to download this project: https://www.ebi.ac.uk/ena/browser/view/PRJEB1787 My problem is, that the "Read files" option on the right, between "Navigation" and "Additional Attributes" simply doesn't show up for me, and because of this I can't download the read files. Does anybody else have a similar problem? How can I fix this? Thanks,

ENA nucleotide archive download • 362 views
ADD COMMENT
0
Entering edit mode
4 months ago
GenoMax 104k

Looks like ENA does not have the data links. If you are simply interested in following the tutorial then you can let ENA know about this problem. If you actually want the data then do the following.

Use sra-explorer and search with PRJEB1787. Use directions here: C: sra-explorer : find SRA and FastQ download URLs in a couple of clicks

Remember to use second tab to download from SRA after you add samples you need to your cart. You will have to use fastq(er)-dump from sratoolkit to convert the .sra files. There is over 3 TB of sequence data in this project.

ADD COMMENT
0
Entering edit mode

Thanks, but I try to avoid using SRA because I am not very satisfied of how it handles paired end files. My problem isn't that I can't download this specific project, but that I can't reach any of the run files, even those that I could download earlier.

ADD REPLY

Login before adding your answer.

Traffic: 2458 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6