I am trying to align a base with 22 sequences of a max length of 483656 base pairs, it is long, but not very, i am using a Sierra Mac OS, and i am using Muscle v3.8.31. I have used the following command line while standing where the program muscle is and where the base to be aligned is also saved, in order to do the alignment as suggested by the program tutorial:
Path/to/muscle -in File.to.align.fasta -out Output.file.name.afa -maxiters 1 -diags
and after days of running i got the next output:
File.to.align. 22 seqs, max length 483652, avg length 253004 00:00:02 35 MB(0%) Iter 1 100.00% K-mer dist pass 1 00:00:02 35 MB(0%) Iter 1 100.00% K-mer dist pass 2 Killed: 9 928 MB(11%) Iter 1 100.00% Align node
It strikes me that all three processes have a 100% advance, but the last one says "Killed", the number in brackets is 11%, and it gives no output, i guess the output should have been saved in the same folder, but it was not created.
Anyone has any idea what could have happened?, or where could the output be if it actually finished?