annovar refLink download failed

[dhlee3342]

Hello Kai,

Thank you for the great software as well as the documentation.
When I tried to download refGene, one file in not available.
Here's my command.

$ annotate_variation.pl -downdb -buildver hg38 -webfrom annovar refGene humandb/
--------------------------------------------------------------------------
NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/hg38_refGene.txt.gz ... OK
NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/hg38_refLink.txt.gz ... Failed
NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/hg38_refGeneMrna.fa.gz ... OK
NOTICE: Uncompressing downloaded files
NOTICE: Finished downloading annotation files for hg38 build version, with files saved at the 'humandb' directory
WARNING: Some files cannot be downloaded, including http://www.openbioinformatics.org/annovar/download/hg38_refLink.txt.gz
$
$
$ wget http://www.openbioinformatics.org/annovar/download/hg38_refLink.txt.gz
--2023-06-08 10:29:25--  http://www.openbioinformatics.org/annovar/download/hg38_refLink.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... connected.
HTTP request sent, awaiting response... 404 Not Found
2023-06-08 10:29:53 ERROR 404: Not Found.

Best,

Don

[kaichop]

refLink is not needed (in some older human genome build, and for some other species, it is useful since the refGene file does not contain gene name)

…

On Thu, Jun 8, 2023 at 11:03 AM dhlee3342 ***@***.***> wrote: Hello Kai, Thank you for the great software as well as the documentation. When I tried to download refGene, one file in not available. Here's my command. $ annotate_variation.pl -downdb -buildver hg38 -webfrom annovar refGene humandb/ -------------------------------------------------------------------------- NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/hg38_refGene.txt.gz ... OK NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/hg38_refLink.txt.gz ... Failed NOTICE: Downloading annotation database http://www.openbioinformatics.org/annovar/download/hg38_refGeneMrna.fa.gz ... OK NOTICE: Uncompressing downloaded files NOTICE: Finished downloading annotation files for hg38 build version, with files saved at the 'humandb' directory WARNING: Some files cannot be downloaded, including http://www.openbioinformatics.org/annovar/download/hg38_refLink.txt.gz $ $ $ wget http://www.openbioinformatics.org/annovar/download/hg38_refLink.txt.gz --2023-06-08 <http://www.openbioinformatics.org/annovar/download/hg38_refLink.txt.gz--2023-06-08> 10:29:25-- http://www.openbioinformatics.org/annovar/download/hg38_refLink.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... connected. HTTP request sent, awaiting response... 404 Not Found 2023-06-08 10:29:53 ERROR 404: Not Found. — Reply to this email directly, view it on GitHub <#222>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABNG3ODMZFP7FR2EST4WBVDXKHSSXANCNFSM6AAAAAAY7NV4GA> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

[dhlee3342]

Thank you!!