Singularity image link

[mangiruben]

What is the updated link for the singularity image? the one provided in the README(https://zerkalo.curie.fr/partage/HiC-Pro/singularity_images/hicpro_latest_ubuntu.img) does not work.

[d0minicO]

https://zerkalo.curie.fr/partage/HiC-Pro/singularity_images/hicpro_3.1.0_ubuntu.img worked for me

[Matheo-LESNE]

Hey everyone,

I also encountered some troubles with the zerkalo link. For example, here is the output when I tried to download the test dataset:

--2023-02-21 15:37:21-- https://zerkalo.curie.fr/partage/HiC-Pro/HiCPro_testdata.tar.gz Resolving zerkalo.curie.fr (zerkalo.curie.fr)... failed: Name or service not known. wget: unable to resolve host address ‘zerkalo.curie.fr’

To download the singularity image, I found another way to get it with this command (https://singularityhub.github.io/singularityhub-archive/containers/DoaneAS-HiC-Pro-latest/), which will give the .sif directly: singularity pull shub://DoaneAS/HiC-Pro:latest

And you can use the .sif to run it: singularity exec HiC-Pro_latest.sif HiC-Pro -h

Hope this could help.

[pierrepo]

Hello, The download link of the Singularity image is down:

https://zerkalo.curie.fr/partage/HiC-Pro/singularity_images/hicpro_latest_ubuntu.img

and the Singularity image available at https://singularityhub.github.io/singularityhub-archive/containers/DoaneAS-HiC-Pro-latest/ seems quite old since the build date is 2019 and HiC-Pro 3.1.0 has been released in 2021.

@nservant could you please reactivate the Zerkalo server?

[jeff-godwin]

I'm having the same issue. Following this thread for a solution.

Thanks in advance, Jeff

[ghost]

If the previously mentioned methods of obtaining Singularity images are not viable, is there an alternative solution that would be to explore other options for using the 3D Genome Builder tool.

[pierrepo]

According to the README, it is possible to manually install HiC-Pro, but I haven't tried it myself.