Unable to download human genome reference data GRCh38

[sttongjai]

Hello,

I have tried downloading human genome reference data GRCh38 from a given link (https://nci.space/clinsv/clinsv_b38/refdata-b38_v1.0.tar), but I could not download the data. There is a problem with host address ‘nci.space’, as shown below.

$ wget https://nci.space/clinsv/clinsv_b38/refdata-b38_v1.0.tar --2023-03-23 21:25:54-- https://nci.space/clinsv/clinsv_b38/refdata-b38_v1.0.tar Resolving nci.space (nci.space)... failed: nodename nor servname provided, or not known. wget: unable to resolve host address ‘nci.space’

Could you please check whether the provided link is working?

Thank you very much.

Siripong

[drmjc]

Thanks for reporting, I'll look into it

On Fri, 24 Mar 2023, 1:44 am sttongjai, @.***> wrote:

Hello,

I have tried downloading human genome reference data GRCh38 from a given link (https://nci.space/clinsv/clinsv_b38/refdata-b38_v1.0.tar), but I could not download the data. There is a problem with host address ‘ nci.space’, as shown below.

$ wget https://nci.space/clinsv/clinsv_b38/refdata-b38_v1.0.tar --2023-03-23 21:25:54-- https://nci.space/clinsv/clinsv_b38/refdata-b38_v1.0.tar Resolving nci.space (nci.space)... failed: nodename nor servname provided, or not known. wget: unable to resolve host address ‘nci.space’

Could you please check whether the provided link is working?

Thank you very much.

Siripong

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[HudoGriz]

Hi,

I am experiencing the same problem even with the old version: wget https://nci.space/clinsv/ClinSV_x86_64_v0.9.tar.gz

Are there any updates regarding this issue?

[MatDaw]

Hello,

Is there a possibility to temporarily share the file on another file hosting? Or maybe we can use an alternative reference genome?

Thanks, Mateusz

[adarsh-pp]

Hello,

I am also getting the same error while trying to download the referenence as well as the example data. Please update on this issue. Is it necessary to use this same reference or can we use an alternate file?

Thanks, Adarsh

[drmjc]

Hi, the nci.space domain has expired and the postdoc who bought it left... I need to come up with a permanent solution for this.

[drmjc]

migrating data to an s3 bucket...

[petaleaf]

migrating data to an s3 bucket...

thank you

[adarsh-pp]

migrating data to an s3 bucket...

Thank you. Please share about how to access it.

[dingxm]

Same problem. Here. How can we get the access to the s3 bucket. Thanks a lot for help.

[tstokowy]

Hi, it seems the issue persists. I also can not access reference data. Regards, Tomasz

[SaulGoodman1337]

same issue. need reference

[drmjc]

Hi, The reference data are now available on s3. These are some of the key files: https://clinsv.s3.ccia.org.au/clinsv_b38/refdata-b38_v1.0.tar https://clinsv.s3.ccia.org.au/clinsv_b38/ClinSV_x86_64_v1.0.tar.gz https://clinsv.s3.ccia.org.au/clinsv_b38/ClinSV_scripts_only_v1.0.tar.gz https://clinsv.s3.ccia.org.au/clinsv_b38/NA12878_b38.bam https://clinsv.s3.ccia.org.au/clinsv_b38/NA12878.grch38.subsampled.bam

I still need to update the docs, and the code that creates the IGV manifest files, but this should get you started...

yes hs37d5 data is also available for use with ClinSV v0.9: https://clinsv.s3.ccia.org.au/clinsv_b37/refdata-b37_v0.9.tar https://clinsv.s3.ccia.org.au/clinsv_b37/ClinSV_x86_64_v0.9.tar.gz https://clinsv.s3.ccia.org.au/clinsv_b37/ClinSV_scripts_only_v0.9.tar.gz https://clinsv.s3.ccia.org.au/clinsv_b37/NA12878_v0.9.bam

[SaulGoodman1337]

I just want to say thank you. Runs 👍