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Canvas - Copy number variant (CNV) calling from DNA sequencing data
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filter13 bed file not found error #129

Closed asmariyaz23 closed 5 years ago

asmariyaz23 commented 5 years ago

Hello,

I am trying to download the filter13 bed file for GRCh37 but get this error:

wget http://canvas-cnv-public.s3.amazonaws.com/GRCh37/WholeGenomeFasta/GRCh37/filter13.bed
--2019-08-21 03:46:09--  http://canvas-cnv-public.s3.amazonaws.com/GRCh37/WholeGenomeFasta/GRCh37/filter13.bed
Resolving canvas-cnv-public.s3.amazonaws.com (canvas-cnv-public.s3.amazonaws.com)... 52.216.104.235
Connecting to canvas-cnv-public.s3.amazonaws.com (canvas-cnv-public.s3.amazonaws.com)|52.216.104.235|:80... connected.
HTTP request sent, awaiting response... 404 Not Found
2019-08-21 03:46:09 ERROR 404: Not Found.

Has the file been moved? Is there another way to fetch it. Note, I want to run Canvas in Germline-WGS mode.

Thank you Asma

eroller commented 5 years ago

Your link is wrong. It should be http://canvas-cnv-public.s3.amazonaws.com/GRCh37/filter13.bed

Germline-WGS has been deprecated. Use SmallPedigree-WGS.