g++ -O3 -std=c++11 -pthread -DVERSION=“"1.48.0"” -DRELEASE_DATE=“"5/20/22"” -DUSE_READLINE -I. -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/engines/ -I source/metastats/ -I source/read/ -I source/svm/ -c -o source/calculators/accuracy.o source/calculators/accuracy.cpp
In file included from source/datastructures/sabundvector.hpp:4,
source/datastructures/datavector.hpp:4:10: fatal error: mothurout.h: No such file or directory
4 | #include “mothurout.h”
make: *** [Makefile:144: source/calculators/accuracy.o] Error 1
You might try to download the source code again and recompile. That file should be there.
Is there a reason you’re trying to build from source?
No, but just following the MiSeq sop … after all I reinstall it via sudo
You should probably be using the precompiled binaries that you can find at Release Version 1.48.0 · mothur/mothur · GitHub
I have another question can I use Mothur to analyze shotgun metagenomics data?
if yes! how can I do that?
It’s for amplicon sequence data. I’d encourage you to find a paper that uses shotgun metagenomics sequence analysis and use their methods.
Can I use Mothur to get ASVs?