slorado

Building CPU-only version of slorado on x84_64

For slorado CPU version, a minimum g++ version of 5.4 (available by default in Ubuntu 16) is required due to libtorch v2.0.0 we use currently. This is by default available on Ubuntu 16.04 or higher. You can check your g++ version as g++ --version.

Install zlib development files needed for slow5lib:

 On Debian/Ubuntu : sudo apt-get install zlib1g-dev
 On Fedora/CentOS : sudo dnf/yum install zlib-devel

Clone the slorado repository recursively

 git clone --recursive https://github.com/BonsonW/slorado
 cd slorado

Run the script that downloads and extracts torchlib.
```
 scripts/install-torch2.sh cpu
```
Invoke make
```
 make -j
```
Check the compiled slorado version
```
 ./slorado --version
```

Custom libtorch path:
```
  make LIBTORCH_DIR=/path/to/libtorch
```
C++11 ABI (if you are using torch version with C++11 ABI):
```
  make cxx11_abi=1
```
You can optionally enable zstd support for built-in slow5lib when building slorado by invoking make zstd=1. This requires zstd 1.3 development libraries installed on your system (libzstd1-dev package for apt, libzstd-devel for yum/dnf).

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