I'm sorry that I did not follow up on the versions of fastANI, but, at some point between 1.2 and 1.32 the program became very slow under MacOSX. It used t be able to compare 190 vs 190 genomes in close to an hour (with threading), now, same machine, same number of threads, it takes around five or six hours to run 150 vs 150 (I reduced the number of genomes compared at a time to try and see some preliminary results as the comparison batches progressed). Something changed, I don't know what. Nothing in the release notes gives me a clue. I doubt using a percent of the smaller genome as threshold would be that problematic in terms of speed, for example.
I'm using the fastANI provided through homebrew, but I also tried compiling it myself. It didn't help.
I'm sorry that I did not follow up on the versions of fastANI, but, at some point between 1.2 and 1.32 the program became very slow under MacOSX. It used t be able to compare 190 vs 190 genomes in close to an hour (with threading), now, same machine, same number of threads, it takes around five or six hours to run 150 vs 150 (I reduced the number of genomes compared at a time to try and see some preliminary results as the comparison batches progressed). Something changed, I don't know what. Nothing in the release notes gives me a clue. I doubt using a percent of the smaller genome as threshold would be that problematic in terms of speed, for example.
I'm using the fastANI provided through homebrew, but I also tried compiling it myself. It didn't help.