comparison toolfactory/rgToolFactory2.py @ 1:2fc9b11bbdba draft

Uploaded

0:43edf22e8cbc

        cll = [
            "planemo",
            "test",
            "--galaxy_python_version",
            self.args.python_version,
            "--conda_auto_init",
            "--test_data",
            os.path.abspath(self.testdir),
            "--test_output",
            os.path.abspath(tool_test_path),
            "--galaxy_root",

            stderr=tout,
            stdout=tout,
        )
        tout.close()
        return p.returncode

    def set_planemo_galaxy_root(self, galaxyroot='/galaxy-central', config_path=".planemo.yml"):
        # bug in planemo - bogus '--dev-wheels' passed to run_tests.sh as at april 2021 - need a fiddled copy so it is ignored until fixed
        CONFIG_TEMPLATE = """## Planemo Global Configuration File.
## Everything in this file is completely optional - these values can all be
## configured via command line options for the corresponding commands.

## Specify a default galaxy_root for test and server commands here.
galaxy_root: %s
## Username used with toolshed(s).
#shed_username: "<TODO>"
sheds:
  # For each tool shed you wish to target, uncomment key or both email and
  # password.
  toolshed:
    #key: "<TODO>"
    #email: "<TODO>"
    #password: "<TODO>"
  testtoolshed:
    #key: "<TODO>"
    #email: "<TODO>"
    #password: "<TODO>"
  local:
    #key: "<TODO>"
    #email: "<TODO>"
    #password: "<TODO>"
"""
        if not os.path.exists(config_path):
            with open(config_path, "w") as f:
                f.write(CONFIG_TEMPLATE % galaxyroot)


def main():
    """
    This is a Galaxy wrapper.
    It expects to be called by a special purpose tool.xml

1:2fc9b11bbdba

        cll = [
            "planemo",
            "test",
            "--galaxy_python_version",
            self.args.python_version,
            "--test_data",
            os.path.abspath(self.testdir),
            "--test_output",
            os.path.abspath(tool_test_path),
            "--galaxy_root",

            stderr=tout,
            stdout=tout,
        )
        tout.close()
        return p.returncode

def main():
    """
    This is a Galaxy wrapper.
    It expects to be called by a special purpose tool.xml