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The “conda install” on the above page gives the installation commands.
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The conda part in the red circle needs to be changed to mamba, and the bioconda part in the blue box is the channel name of this multiqc package. Channel is similar to the name of an online folder, that mamba can find and download the correct package. This is important for the next step.
Step Two: Install
1. Open a terminal app or a command line interface on my a personal laptop or pc, or in a Sol desktop session. And then type in the commands:
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In step 5, the -c flag means “channel", which is similar to the name of an online folder, that mamba can find and download the correct package. The channel name must be correct to install the correct package. You can find the correct channel name by searching the package name on anaconda.org. In our case, the channel of multiqc is bioconda, as found in Step Two.
Step Three: Use
Once the myENV environment is ready, multiqc can be used directly or within a python session/script.
Open a terminal app or a command line interface on my a personal laptop or pc, or in a Sol desktop session. And then type in the commands:
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module load mamba/latestsource activate myENVpythonimport multiqc
Step Four: What about pip?
As explained in Python Package Installation Method Comparison , if a package is not found on anaconda.org, but found on pypi.org , pip can be used inside a mamba env.
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Almost all of the python packages can be found on anaconda.org |
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The the commands to have this package installed to a mamba env are:
Open a terminal app or a command line interface on a personal laptop or pc, or in a Sol desktop session. And then type in the commands:
ssh someone@sol.asu.edu
interactive -p htc -c 4 -t 30
module load mamba/latestsource activate myENVpip install q2-greengenes2