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Installation
Freya Arthen edited this page Feb 20, 2024
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To install taXaminer, use the python package installer pip. Note: taXaminer is as of yet not published at pypi, thus you need to download this repository and provide pip with the link to the directory for installation.
git clone https://github.com/BIONF/taXaminer.git
pip install ./taXaminer
To install the additional dependencies, use the setup function included in taXaminer. You can install the tools either via conda or locally in a specified directory.
Using conda (installs into the currently active environment):
taxaminer.setup --conda
In a local directory:
taxaminer.setup -o </path/to/tool/directory/>
To download and build the database, use:
taxaminer.setup --db -d </path/to/database/directory/>
Use the following command to use an existing database.
taxaminer.setup -d </path/to/existing_database/directory/>
- operating system: Unix-based
- Python >= 3.7
- Diamond >= 2.1.7