Problem downloading Mouse databases in ANNOVAR
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Entering edit mode
10.2 years ago
fenguita ▴ 10

Dear All

I am trying to use Annovar for annotating SNPs in mouse. I have installed Annovar, and when I try to download the mouse databases, I got an annoying error message saying that the software was not able to download anything. What I am doing wrong? Any clues? By the way, the same procedure work fine when I download the human data. Thanks.

Command:

./annotate_variation.pl -downdb -buildver mm9 -webfrom annovar refGene mousedb/

NOTICE: Web-based checking to see whether ANNOVAR new version is available ... Done
NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/mm9_refGene.txt.gz ... Failed
NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/mm9_refLink.txt.gz ... Failed
NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/mm9_refGeneMrna.fa.gz ... Failed
WARNING: Some files cannot be downloaded, including http://www.openbioinformatics.org/annovar/download/mm9_refLink.txt.gz, http://www.openbioinformatics.org/annovar/download/mm9_refGene.txt.gz, http://www.openbioinformatics.org/annovar/download/mm9_refGeneMrna.fa.gz
exome next-gen • 4.1k views
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I think somehow the link was dead (if you type that link on a browser, you can see the page not found error)

Unfortunately I couldn't find the correct link, or else you should be able to use that directly.

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