Python AlgCleanerTask.__init__ Examples

Example #1

    def __init__(self, nodeid, seqtype, alg_fasta_file, alg_phylip_file, conf,
                 confname):
        GLOBALS["citator"].add(TRIMAL_CITE)

        self.confname = confname
        self.conf = conf
        self.seqtype = seqtype
        self.alg_fasta_file = alg_fasta_file
        self.alg_phylip_file = alg_phylip_file
        base_args = {
            '-in': None,
            '-out': None,
            '-fasta': "",
            '-colnumbering': "",
        }
        # Initialize task
        AlgCleanerTask.__init__(self, nodeid, "acleaner", "Trimal", base_args,
                                self.conf[confname])

        self.init()

Example #2

File: trimal.py Project: a1an77/ete

    def __init__(self, nodeid, seqtype, alg_fasta_file, alg_phylip_file,
                 conf, confname):
        GLOBALS["citator"].add(TRIMAL_CITE)
                               
        self.confname = confname
        self.conf = conf
        self.seqtype = seqtype
        self.alg_fasta_file = alg_fasta_file
        self.alg_phylip_file = alg_phylip_file
        base_args = {
            '-in': None,
            '-out': None,
            '-fasta': "", 
            '-colnumbering': "", 
            }
        # Initialize task
        AlgCleanerTask.__init__(self, nodeid, "acleaner", "Trimal",
                                base_args,
                                self.conf[confname])

        self.init()