issue installing cnv_facets using conda

[dalalsult]

I've attempted to install cnv_facets package using:

conda create -n facets
conda activate facets
conda install -c bioconda -c conda-forge cnv_facets

It's taking forever to install and is stuck at solving environment (10 hours). Is anyone experiencing the same problem?

[dariober]

Try using mamba instead of conda (I should update the README).
After installing it, instead of

conda install -c bioconda -c conda-forge cnv_facets

use

mamba install -c bioconda -c conda-forge cnv_facets

[dalalsult]

Thanks, that seemed to work.
However, I've come across another issue when trying to run cnv_facets.R -h
Error: package or namespace load failed for ‘facets’ in dyn.load(file, DLLpath = DLLpath, ...):
unable to load shared object '/home/dalal/miniconda3/envs/cnv_facets/lib/R/library/facets/libs/facets.so':
libgfortran.so.4: cannot open shared object file: No such file or directory
Execution halted

I installed libgfortran but this doesn't seem to solve the issue.

[dariober]

Can you give some details about your system? I googled libgfortran.so.4: cannot open shared object file and there may be some relevant hits you could try to follow.

[dalalsult]

Sure, here's a few details of the shared server:
No LSB modules are available.
Distributor ID: Ubuntu
Description: Ubuntu 20.04.4 LTS
Release: 20.04
Codename: focal
Kernel: Linux 5.4.0-107-generic
Architecture: x86-64

Please let me know if you require any other details.

[fgvieira]

Having the same issue!

[dariober]

Hello- apologies for keeping quiet... At the moment, I cannot reproduce the issue either locally or on github actions. I run the test suite on Ubuntu 20 and 22 and it looks fine see https://github.com/dariober/cnv_facets/actions/runs/10355003504

The workflow executed on github is https://github.com/dariober/cnv_facets/blob/master/.github/workflows/main.yml