Failure of installing pybedtools and rpy2
LiuCanidk opened this issue · 1 comments
Thanks for developing this nice tool
After running these commands:
mamba create -n SComatic -y python=3.7 r-base=3.6.1 samtools datamash bedtools
mamba activate SComatic
pip install -r requirements.txt
I encountered an error about building wheels on the requirements of SComatic: pybedtools and rpy2:
I followed the instruction of creating a new conda environment with exactly the code provided in the github page, but found this error. Could you please tell me why this occur and how should I do to install SComatic properly?
I then tried install rpy2=2.9.4 via conda, it works but still cannot install pybedtools
Any advice or suggestions would be greatly appreciated! Thanks in advance
conda install -y bioconda::pybedtools
works for me but upgrade many dependent packages. E.g., rpy2
change to >3.0
It seems to be associated with old version of setuptools
with old version of python 3.7 in the requirements.