comparison toolfactory/rgToolFactory2.py @ 65:ed1ecd161295 draft

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64:30847b2e105d

                xreal,
            ]
            p = subprocess.run(
                    cll, shell=False, cwd=self.tooloutdir, stderr=dummy, stdout=dummy,
                )
            dummy.close() # throw all the log away as it will be rerun after outputs are generated
        else:
            cll = ["planemo", "test", "--galaxy_root",
                self.args.galaxy_root,
                xreal,]
            p = subprocess.run(

                    ext = ".txt"
                ofn = "%s%s" % (entry.name.replace(".", "_"), ext)
                dest = os.path.join(self.repdir, ofn)
                src = os.path.join(self.tooloutdir, entry.name)
                shutil.copyfile(src, dest)


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

65:ed1ecd161295

                xreal,
            ]
            p = subprocess.run(
                    cll, shell=False, cwd=self.tooloutdir, stderr=dummy, stdout=dummy,
                )
        else:
            cll = ["planemo", "test", "--galaxy_root",
                self.args.galaxy_root,
                xreal,]
            p = subprocess.run(

                    ext = ".txt"
                ofn = "%s%s" % (entry.name.replace(".", "_"), ext)
                dest = os.path.join(self.repdir, ofn)
                src = os.path.join(self.tooloutdir, entry.name)
                shutil.copyfile(src, dest)
                if entry.name.startswith('tool_test_output'):
                    os.unlink(src)


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