Flye Installation

Availability

Flye is available for Linux and MacOS platforms.

Bioconda Releases

You can get the latest stable release through Bioconda:

conda install flye

Alternatively, you can get a release version from the github releases page

Building Requirements

• Python 2.7 or 3.5+ (with setuptools package installed)
• C++ compiler with C++11 support (GCC 4.8+ / Clang 3.3+ / Apple Clang 5.0+)
• GNU make
• Git
• Core OS development headers (zlib, ...)

Local building (without installation)

You may use the package locally without system installation. To get and compile the latest git version, run:

git clone https://github.com/fenderglass/Flye
cd Flye
make

Then, Flye will be available as:

python bin/flye

Building on ARM architecture

In case building Flye on ARM architecture fails, you might need to modify minimap2 compilation parameters: https://github.com/fenderglass/Flye/issues/386

Installing from source

To install the Flye package into your system, run:

git clone https://github.com/fenderglass/Flye
cd Flye
python setup.py install

Depending on your OS, you might need to add --user or --prefix options to the install command for the local installation.

After installation, Flye could be invoked via:

flye

Optionally, run some tests to ensure that installation was successful:

python flye/tests/test_toy.py