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General Process
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[salexan5@mblog1 ~]$ cd /project/arcc<project-name>/salexan5<username>/ [salexan5@mblog1 salexan5]$ mkdir software [salexan5@mblog1 salexan5]$ cd software [salexan5@mblog1 software]$ pwd /project/arcc<project-name>/salexan5<username>/software [salexan5@mblog1 software]$ module purge []$ module load miniconda3/24.3.0 []$ conda create -p slim_env_4.2.2 ... ## Package Plan ## environment location: /cluster/medbow/project/arcc<project-name>/salexan5<username>/software/slim_env_4.2.2 ... # To activate this environment, use # $ conda activate /cluster/medbow/project/arcc<project-name>/salexan5<username>/software/slim_env_4.2.2 |
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Notice we haven’t performed any activate or install steps. What do we notice about the installation location? |
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Using the |
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[salexan5@mblog2 ~]$ conda install --help
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-p PATH, --prefix PATH
Full path to environment location (i.e. prefix). |
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[salexan5@mblog2 ~]$ cat ~/.conda/environments.txt /home/salexan5<username>/.conda/envs/py_env /project/arcc<project-name>/salexan5<username>/conda/envs/r_env /cluster/medbow/project/arcc<project-name>/salexan5<username>/software/slim_env_4.2.2 |
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Use / Activate this Environment
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[salexan5@mblog2 ~]$ conda activate slim_env_4.2.2
EnvironmentNameNotFound: Could not find conda environment: slim_env_4.2.2
You can list all discoverable environments with `conda info --envs`. |
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[salexan5@mblog2 ~]$ conda info --envs # conda environments: # base /apps/u/opt/linux/miniconda3/24.3.0 /cluster/medbow/project/arcc<project-name>/salexan5<username>/software/slim_env_4.2.2 py_env /home/salexan5<username>/.conda/envs/py_env r_env /project/arcc<project-name>/salexan5<username>/conda/envs/r_env |
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This environment has not ‘name’ no |
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[salexan5@mblog2 ~]$ conda activate /cluster/medbow/project/arcc<project-name>/salexan5<username>/software/slim_env_4.2.2 (/cluster/medbow/project/arcc<project-name>/salexan5<username>/software/slim_env_4.2.2) [salexan5@mblog2 ~]$ |
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Calling the SLiM command-line
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The As soon as you deactivate it, the command is no longer available. |
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(/cluster/medbow/project/arcc<project-name>/salexan5<username>/software/slim_env_4.2.2) [salexan5@mblog2 ~]$ conda install slim (/cluster/medbow/project/<project-name>/<username>/software/slim_env_4.2.2) []$ slim --version SLiM version 4.2.2, built May 5 2024 12:39:53 Git commit SHA-1: unknown (built from a non-Git source archive) (/cluster/medbow/project/arcc<project-name>/salexan5<username>/software/slim_env_4.2.2) [salexan5@mblog2 ~]$ which slim /cluster/medbow/project/arcc<project-name>/salexan5<username>/software/slim_env_4.2.2/bin/slim (/cluster/medbow/project/arcc<project-name>/salexan5<username>/software/slim_env_4.2.2) [salexan5@mblog2 ~]$ conda deactivate [salexan5@mblog2 ~]$ slim --version bash: slim: command not found... |
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