aacc3efb1db8cdf8e7aa5c85e0716f910716d9cc,anvio/drivers/sourmash.py,Sourmash,process,#Sourmash#Any#Any#,54

Before Change

        exit_code = utils.run_command(compare_command, self.log_file_path)
        if int(exit_code):
            raise ConfigError("sourmash returned with non-zero exit code, there may be some errors.\
                      Please check the log file for details. Offending command: \
                      `%s`" % " ".join(compare_command[:7] + "..."))

        matrix = utils.get_TAB_delimited_file_as_dictionary("matrix.csv", indexing_field=-1, separator=",")
                              
        self.progress.end()

After Change

        exit_code = utils.run_command(compare_command, self.log_file_path)
        if int(exit_code):
            self.progress.end()
            raise ConfigError("sourmash returned with non-zero exit code, there may be some errors.\
                              Please check the log file `%s` for details. Offending command: \
                              `%s` ..." % (self.log_file_path, " ".join([str(x) for x in compute_command[:7]])))

        matrix = utils.get_TAB_delimited_file_as_dictionary("matrix.csv", indexing_field=-1, separator=",")

        self.progress.end()

Instances