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WGLab / doc-ANNOVAR

Documentation for the ANNOVAR software
http://annovar.openbioinformatics.org
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Db Download Error #212

Open faramarzgsm opened 1 year ago

faramarzgsm commented 1 year ago

Hi team. I trying to (from 2 months ago) download new vertion of ClinVar database by this command: ./annotate_variation.pl -buildver hg38 -downdb -webfrom annovar clinvar_20221231 humandb/

But, I face to an error: NOTICE: Web-based checking to see whether ANNOVAR new version is available ... Failed NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.gz ... Failed NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.idx.gz ... Failed WARNING: Some files cannot be downloaded, including http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.idx.gz, http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.gz

How can I fix it? I'm from Iran. Are there any limits for this region?

kaichop commented 1 year ago

You can try use a VPN or use a proxy server to download. You can manually "wget" a URL to get the file.

On Mon, Feb 20, 2023 at 7:27 AM faramarzgsm @.***> wrote:

Hi team. I trying to (from 2 months ago) download new vertion of ClinVar database by this command: ./annotate_variation.pl -buildver hg38 -downdb -webfrom annovar clinvar_20221231 humandb/

But, I face to an error: NOTICE: Web-based checking to see whether ANNOVAR new version is available ... Failed NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.gz ... Failed NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.idx.gz ... Failed WARNING: Some files cannot be downloaded, including http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.idx.gz,

http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.gz

How can I fix it? I'm from Iran. Are there any limits for this region?

— Reply to this email directly, view it on GitHub https://github.com/WGLab/doc-ANNOVAR/issues/212, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABNG3ODJKJ6OS5OFJNVMWFTWYNPMVANCNFSM6AAAAAAVB2DR6Q . You are receiving this because you are subscribed to this thread.Message ID: @.***>

faramarzgsm commented 1 year ago

I tried by wget but the problem is present yet.

wget http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.gz --2023-02-27 18:01:42-- http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.gz Resolving www.openbioinformatics.org (www.openbioinformatics.org)... 67.205.156.247 Connecting to www.openbioinformatics.org (www.openbioinformatics.org)|67.205.156.247|:80... failed: Connection refused.

kaichop commented 1 year ago

You need to specify proxy server settings if you use wget and cannot connect directory. Or, if you use a browser, right click mouse and click "save as".

On Mon, Feb 27, 2023 at 9:36 AM faramarzgsm @.***> wrote:

I tried by wget but the problem is present yet.

wget http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.gz --2023-02-27 18:01:42-- http://www.openbioinformatics.org/annovar/download/hg38_clinvar_20221231.txt.gz Resolving www.openbioinformatics.org (www.openbioinformatics.org)... 67.205.156.247 Connecting to www.openbioinformatics.org ( www.openbioinformatics.org)|67.205.156.247|:80... failed: Connection refused.

— Reply to this email directly, view it on GitHub https://github.com/WGLab/doc-ANNOVAR/issues/212#issuecomment-1446441025, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABNG3OBSQCAVBOV3VDZPZFDWZS3WFANCNFSM6AAAAAAVB2DR6Q . You are receiving this because you commented.Message ID: @.***>