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[AB12PHYLO](https://github.com/lkndl/ab12phylo) is an integrated, easy-to-use pipeline for Maximum Likelihood (ML) phylogenetic tree inference from ABI trace and `FASTA` data.
@@ -22,18 +22,25 @@ The recommended way to install AB12PHYLO is via [conda](https://docs.conda.io/),
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conda activate <env>
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conda install -c lkndl ab12phylo
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```
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where `<env>` is your environment. Then install a combination of the external tools you would like to use via
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where `<env>` is your environment. Please do not install to `base`! Then install a combination of the external tools you would like to use via
If starting the graphical `ab12phylo` fails with something like `ValueError: Namespace Gtk not available` or `ModuleNotFoundError: No module named 'gi'`, you are missing PyGObject, the python bindings for GTK3:
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Mind that some of these tools are not available for Windows as of 12 March 2021.
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If starting the graphical `ab12phylo` fails with something like `ValueError: Namespace Gtk not available`, `ModuleNotFoundError: No module named 'gi'` or nothing happens at all (on Windows) you are missing PyGObject, the python bindings for GTK3:
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```shell script
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conda install -c conda-forge pygobject gtk3
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```
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If all the icons in the GUI are missing, install some:
If you get an `UnsatisfiableError` in conda because of incompatible packages, please use the next approach:
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#### b) install to a newly created python3 conda environment
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You could run `conda create -n <env> python=3`and proceed as in **a)** or download [this file](/recipe/gtk-env.yaml), then open a terminal in your download folder and set up the environment specified inside via
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You could run `conda create -n <env> python=3.x` with `x==6|7|8`and proceed as in **a)** or download [this file](/recipe/gtk-env.yaml) for Linux or [that file](/recipe/win-env.yaml) for Windows, then open a terminal or Anaconda Powershell in your download folder and set up the environment specified inside via
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