comparison toolfactory/rgToolFactory2.py @ 74:3d4324df911b draft

Uploaded

73:95adf7148d9a

        rids = [x.get('id','?') for x in repos]
        tout.write(f'############names={rnames} rids={rids}')
        cat = 'ToolFactory generated tools'
        if self.args.tool_name not in rnames:
            cll = ["planemo", "shed_create", "--shed_target", "local",
            "--directory", self.args.tool_dir,
            "--owner","fubar","--name",
            self.args.tool_name,"--shed_key",
            self.args.toolshed_api_key,]
            try:
                p = subprocess.run(

            self.args.tool_name,
            "--shed_key",
            self.args.toolshed_api_key,
            "--tar",
            self.newtarpath,
            "--directory", self.args.tool_dir,
        ]
        p = subprocess.run(cll, shell=False, stdout=tout, stderr=tout)
        tout.write("Ran %s got %d" %  (" ".join(cll), p.returncode))
        tout.close()
        return p.returncode

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

74:3d4324df911b

        rids = [x.get('id','?') for x in repos]
        tout.write(f'############names={rnames} rids={rids}')
        cat = 'ToolFactory generated tools'
        if self.args.tool_name not in rnames:
            cll = ["planemo", "shed_create", "--shed_target", "local",
            "--owner","fubar","--name",
            self.args.tool_name,"--shed_key",
            self.args.toolshed_api_key,]
            try:
                p = subprocess.run(

            self.args.tool_name,
            "--shed_key",
            self.args.toolshed_api_key,
            "--tar",
            self.newtarpath,
        ]
        p = subprocess.run(cll, shell=False, stdout=tout, stderr=tout)
        tout.write("Ran %s got %d" %  (" ".join(cll), p.returncode))
        tout.close()
        return p.returncode

            cll = [
                "planemo",
                "test",
                "--galaxy_root",
                self.args.galaxy_root,
                "--update_test_data",
                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(
                    cll, shell=False, cwd=self.tooloutdir, stderr=tout, stdout=tout
                )
        tout.close()