Ejemplos de main en Python

Ejemplo n.º 1

Archivo: taggd_demultiplex_test.py Proyecto: elhb/taggd

    def test_normal_fa_run(self):
        """
        Tests taggd demultiplexer on a variety of small files.
        """
        outdir = tempfile.mkdtemp(prefix="taggd_demultiplex_test_out_fasta_")
        args = ["--k", "4", "--max-edit-distance", "8", "--overhang", "3", 
                "--subprocesses", "3", "--seed", "dsfiogwhgfsaeadsgfADSgsagaagd"]
        args += [self.inbarcodes, self.infa, os.path.join(outdir, "outfile")]

        # Start the demultiplexer
        try:
            print "\n# Running Fasta test with parameters: " + " ".join(args)
            deplex.main(args)
            self.validate_output_data("Normal Fasta test", "fa", outdir)
        except Exception as e:
            print e
            self.assertTrue(0, "Running Normal Fasta test failed\n")

Ejemplo n.º 2

Archivo: taggd_demultiplex_test.py Proyecto: almaan/taggd

    def test_normal_fa_run(self):
        """
        Tests taggd demultiplexer on a variety of small files.
        """
        outdir = tempfile.mkdtemp(prefix="taggd_demultiplex_test_out_fasta_")
        args = ["--k", "4", "--max-edit-distance", "8", "--overhang", "3", 
                "--subprocesses", "3", "--seed", "dsfiogwhgfsaeadsgfADSgsagaagd"]
        args += [self.inbarcodes, self.infa, os.path.join(outdir, "outfile")]

        # Start the demultiplexer
        try:
            print("\n# Running Fasta test with parameters: " + " ".join(args))
            deplex.main(args)
            self.validate_output_data("Normal Fasta test", "fa", outdir)
        except Exception as e:
            print(e)
            self.assertTrue(0, "Running Normal Fasta test failed\n")

Ejemplo n.º 3

Archivo: taggd_demultiplex.py Proyecto: eriksjolund/taggd

#!/usr/bin/env python
"""
Starts and runs a TagGD demultiplexing job. Type -h for help.
\n
See https://github.com/JoelSjostrand/taggd/wiki for manual and the most recent source code.
\n
See http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0057521
for the peer-reviewed reference to the program.
"""

import taggd.core.demultiplex as deplex

if __name__ == "__main__":
    deplex.main()

Ejemplo n.º 4

Archivo: taggd_demultiplex.py Proyecto: elhb/taggd

#!/usr/bin/env python
"""
Starts and runs a TagGD demultiplexing job. Type -h for help.
\n
See https://github.com/SpatialTranscriptomicsResearch/taggd/wiki for manual and the most recent source code.
\n
See http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0057521
for the peer-reviewed reference to the program.
"""


import taggd.core.demultiplex as deplex

if __name__ == "__main__":
    deplex.main()