b3187df675a6e5f590376292aff521e562a942c0,anvio/drivers/sourmash.py,Sourmash,process,#Sourmash#Any#Any#,56

Before Change

        self.progress.new("Sourmash")
        self.progress.update("Computing fasta signatures...")

        kmers = list(range(5,25,5))
        kmers_str = ",".join([str(kmer) for kmer in kmers])

        scale = "--scaled=%i" % self.scale
        compute_command = [self.program_name, "compute",
                           "-k", kmers_str,

After Change

    def process(self, input_path, fasta_files):
        self.run.info("[sourmash] Kmer size", self.kmer_size, nl_before=1)
        self.run.info("[sourmash] Compression ratio", self.scale)

        report_name = "kmer_%d_mash_similarity" % self.kmer_size

Instances