my problem is that I am running this code to create an environment !conda create -y -n phage_od python=3.9 ipykernel, and after doing that I wanted to install the software I need for my bioinformatic analysis, using the following commands…
!mamba install -y trim-galore
…for this command I am getting the error- ‘Could not solve for environment specs
Encountered problems while solving:- package trim-galore-0.4.1-0 requires cutadapt, but none of the providers can be installed. The environment can’t be solved, aborting the operation’ however when i try and install cut adapt i then get another error..’Could not solve for environment specs Encountered problems while solving:- package cutadapt-4.2-py39hbf8eff0_0 requires xopen >=1.6.0, but none of the providers can be installed. The environment can’t be solved, aborting the operation’
!mamba install -y pilon
…This command works fine
!mamba install -y spades
…This command works fine
!mamba install -y pharokka
…This command also gives me a similar error- Could not solve for environment specs
Encountered problems while solving:- package pharokka-1.7.0-pyhdfd78af_0 requires biopython >=1.80,<1.82, but none of the providers can be installed. The environment can’t be solved, aborting the operation
!mamba install -y samtools
…This command works fine
!mamba install -y minimap2
…This command works fine
!mamba install -y clinker-py
..This command gives me a similar error…
I when i run my first command- to create an environment using !conda create -y -n phage_od python=3.9 ipykernel, It runs but I am getting this message ‘SafetyError: The package for ca-certificates located at /shared/team/conda/pkgs/ca-certificates-2024.2.2-hbcca054_0
appears to be corrupted. The path ‘ssl/cacert.pem’
has an incorrect size.reported size: 292541 bytes actual size: 0 bytes’ so not sure whether this is linked to the installation issues I am having as stated aboce 🙂