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rrwick / Porechop

adapter trimmer for Oxford Nanopore reads
GNU General Public License v3.0
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cpp_function error (again) #88

Open miguensblanco opened 4 years ago

miguensblanco commented 4 years ago

Thanks for Porechop! I have been reading in different issues how to fix the message: -error: [Errno 2] No such file or directory: 'porechop/cpp_functions.so'

Most of the time the answer and looks like the solution is to update gcc, however I just update my one: (qiime2-2020.2) qiime2@qiime2core2020-2:~$ gcc --version gcc (Ubuntu 7.5.0-3ubuntu1~18.04) 7.5.0

As you can see above I am using the qiime2 core version using a virtual box, I am not sure that this have any implication but I'd really appreciate any help. Thanks!!

lijie04 commented 2 years ago

I have tried with gcc 8.5.0, it worked

algaebrown commented 1 year ago

cpp newbie here. Writing down my solution for other newbies so that they don't google for hours ^^

#the server's gcc was ancient like 4.3
# but I cannot sudo to upgrade

# conda create an env
conda create -n porechop
conda activate porechop

# install via conda
conda install gcc
conda install gxx

# need to export the CC and CXX variables
# to find the path
which gcc
which g++

# paste the path of `which gcc` to CC=
export CC=/PATH/TO/THE/CONDA/GCC
export CXX=/PATH/TO/THE/CONDA/GXX

# cd to porechop path
cd /PATH/TO/PORECHOP
pip install .
# or local executable
make