Support Conda Installation?

[shenwei356]

Hi @XiaomingXu1995 , could you please submit this tool to conda bioconda channel, so users can install it via just one command?

I've tried to compile RabbitKSSD, but failed many times by changing CMake to v3.5 or creating a conda environment for compiling.

To reproduce the error:

conda create -n rabbitkssd cmake=3.5
conda activate rabbitkssd


git clone --recursive https://github.com/RabbitBio/RabbitKSSD.git
cd RabbitKSSD

cd RabbitFX
mkdir -p build 
cd build
cmake -DCMAKE_INSTALL_PREFIX=. ..

# failed here
make -j 8

The log is here: log.txt

Additionally, it would be great if some tags/releases are available.

[ZekunYin]

It seems this can be simply fixed by add #include <cstdint> in RabbitKSSD/RabbitFX/io/Globals.h. We will add some static compile versions in the release and add it to bioconda soon. Thanks for the suggestions. If the compile error still occurs, please feel free to contact us!

[shenwei356]

@ZekunYin Thanks for the patch, compiling RabbitFX works, but it failed to compile RabbitKSSD :(
See log2.txt

[shenwei356]

I also tried to run install.sh, failed again.

log3.txt

[ZekunYin]

Sorry about that. It seems to be the same issue. I believe it can be easily fixed by adding #include <cstdint> to both RabbitKSSD/src/common.h and RabbitKSSD/src/shuffle.h.
The problem likely arises because our tested compiler uses a permissive mode that allows the use of uint64_t without explicitly including the header. However, this behavior is not supported in your environment. We will fix it in the next version. Thanks for the issue!