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DOC: more detailed installation instructions
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- mention mamba (close #50)
- mention install-from-source as backup option
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fedarko committed Sep 14, 2023
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31 changes: 27 additions & 4 deletions README.md
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Expand Up @@ -77,16 +77,39 @@ supporting Python 3.6 and 3.7). strainFlye depends on a few non-Python tools
### Installation using conda (recommended)

The simplest way to install strainFlye is by using
[conda](https://conda.io/). strainFlye is available through the
[bioconda](https://bioconda.github.io/) channel:
[conda](https://conda.io/) (or [mamba](https://mamba.readthedocs.io)).
strainFlye is available through the [bioconda](https://bioconda.github.io/)
channel:

<!-- using HTML table syntax to work nicely with code blocks; see
https://gist.github.com/MarcoEidinger/c0f0583f19baca0a8f33bcded644be41 -->
<table>
<tr>
<th>Using conda</th><th>Using mamba</th>
</tr>
<tr>
<td>

```bash
conda install -c bioconda strainflye
```

(If you run into dependency conflicts when installing strainFlye into an
</td>
<td>

```bash
mamba install -c bioconda strainflye
```

</td>
</tr>
</table>


If you run into dependency conflicts when installing strainFlye into an
existing conda environment, you may want to just create a new conda environment
and install strainFlye into that.)
and install strainFlye into that. And if that still doesn't work, you can try
installing from source -- see below.

### Installation from source

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