Warning while installing with conda

[jpaganini]

Hi,

I runned into a warning while installing the tool thru conda. The tool still runs well, but it gives an error message when integrating into a pipeline. Error message below:

SafetyError: The package for checkm-genome located at /home/dla_mm/jpaganini/data/miniconda3/pkgs/checkm-genome-1.2.0-pyhdfd78af_0
appears to be corrupted. The path 'site-packages/checkm/DATA_CONFIG'
has an incorrect size.
  reported size: 209 bytes
  actual size: 272 bytes

ClobberError: This transaction has incompatible packages due to a shared path.
  packages: conda-forge/linux-64::libstdcxx-ng-12.1.0-ha89aaad_16, defaults/linux-64::binutils_impl_linux-64-2.38-h2a08ee3_1
  path: 'share/licenses/libstdc++/RUNTIME.LIBRARY.EXCEPTION'


ClobberError: This transaction has incompatible packages due to a shared path.
  packages: conda-forge/linux-64::libgomp-12.1.0-h8d9b700_16, defaults/linux-64::binutils_impl_linux-64-2.38-h2a08ee3_1
  path: 'share/licenses/gcc-libs/RUNTIME.LIBRARY.EXCEPTION.gomp_copy'


ClobberError: This transaction has incompatible packages due to a shared path.
  packages: defaults/linux-64::binutils_impl_linux-64-2.38-h2a08ee3_1, conda-forge/linux-64::libgcc-ng-12.1.0-h8d9b700_16
  path: 'share/info/libgomp.info'


ClobberError: This transaction has incompatible packages due to a shared path.
  packages: defaults/linux-64::binutils_impl_linux-64-2.38-h2a08ee3_1, conda-forge/linux-64::libgcc-ng-12.1.0-h8d9b700_16
  path: 'share/info/libquadmath.info'


ClobberError: This transaction has incompatible packages due to a shared path.
  packages: defaults/linux-64::binutils_impl_linux-64-2.38-h2a08ee3_1, conda-forge/linux-64::libgcc-ng-12.1.0-h8d9b700_16
  path: 'share/licenses/gcc-libs/RUNTIME.LIBRARY.EXCEPTION'

[aldertzomer]

checkm-genome is not managed by us. I think you have to ask the author of checkm.

The clobber error is an issue with incompatible tools I think. using 2 different virtual environments would work.