I run Linux via ubuntu in windows. My terminal has python3 instead of python. I am using a package named PASTA, which uses commands with python as:

python run_pasta.py -i input_fasta 

Since, I have python3, I am trying to run it this way:

python3 run_pasta.py -i ALL_FASTA.fasta -d protein --aligner=probcons

which gives me the following error, could anyone please tell how to fix this?

PASTA INFO: Performing initial alignment of the entire data matrix... PASTA failed because one of the programs it tried to run failed. The invocation that failed was: "/mnt/f/Projects/WoldringLab/AnalyzingGenerativeModel/pasta-code/pasta/bin/hmmeralign" "/home/aryaman3900/.pasta/pastajob/temp569cp9x3/init_aln/temphmmeralignourpmnyw/input.fasta" "/home/aryaman3900/.pasta/pastajob/temp569cp9x3/init_aln/query-0.fasta" "/home/aryaman3900/.pasta/pastajob/temp569cp9x3/init_aln/temphmmeralignourpmnyw/input.aligned" "amino"

/usr/bin/env: ‘python’: No such file or directory

CodePudding user response：

You can create a symlink (symbolical link) from python3 to python. What this will do is just to map each call to /usr/bin/python to your python3 executable:

sudo ln -s $(which python3) /usr/bin/python

You can learn more about the ln command by reading its man page via man ln.