lumramirezch
commented
4 years ago I made this modifications for plmDCA to work:
git clone https://github.com/magnusekeberg/plmDCA.git replace the original version of plmDCA.m (plmDCA_asymmetric.m) by the one provided in the alphafold_pytorch repo
rm ~/plmDCA/plmDCA_asymmetric_v2/plmDCA_asymmetric.m
cp ~/alphafold_pytorch/plmDCA.m ~/plmDCA/plmDCA_asymmetric_v2/ Finally run octave-cli (command line)
cd ~/plmDCA/plmDCA_asymmetric_v2/functions/ ; for i in *.c ; do octave-cli --eval "mex $i" ; done
cd ~/plmDCA/plmDCA_asymmetric_v2/3rd_party_code/minFunc/ ; for i in *.c ; do octave-cli --eval "mex $i" ; done
I guess this plmDCA.m can produce .mat file from .aln file. But, after I executed
I got only the following message and did not get any .mat file
I prepared the environment the following instruction with a few modifications
git clone https://github.com/magnusekeberg/plmDCA.git mv plmDCA/plmDCA_asymmetric_v2 plmDCA/plmDCA mkdir plmDCA/plmDCA_asymmetric_v2 cp plmDCA.m plmDCA/plmDCA_asymmetric_v2/ cp plmDCA/plmDCA/functions/ plmDCA/plmDCA_asymmetric_v2/ cp plmDCA/plmDCA/3rd_party_code/ plmDCA/plmDCA_asymmetric_v2/ cd plmDCA/plmDCA_asymmetric_v2/functions/; for i in .c; do octave --eval "mex $i";done cd ../3rd_party_code/minFunc/; for i in .c; do octave --eval "mex $i"; done` By using those code, I made two .mex files in function folder, and three .mex files in minFunc folder.
I also noticed that the message written above did not change even after I renamed the function and 3rd_party_code folders. So, I think my plmDCA.m does not recognize those mex or c files.
How can I fix this problem? Thanks in advance!