Module export.database in plugin tabular v0.5.1

Export database values.

Author(s)	Markus Binsteiner (markus@frkl.io)
Tags	tabular
Python class	kiara_plugin.tabular.modules.db.ExportNetworkDataModule

Configuration

Module configuration options

Configuration class: kiara.modules.included_core_modules.export_as.DataExportModuleConfig

Name	Description	Type	Required?	Default
source_type	The type of the source data that is going to be exported.	string	true	null
target_profile	The name of the target profile. Used to distinguish different target formats for the same data type.	string	true	null
constants	Value constants for this module.	object	false	null
defaults	Value defaults for this module.	object	false	null

Source code

Module source code

class ExportNetworkDataModule(DataExportModule):
    """Export database values."""

    _module_type_name = "export.database"

    def export__database__as__sqlite_db(
        self, value: KiaraDatabase, base_path: str, name: str
    ):
        """Export network data as a sqlite database file."""

        target_path = os.path.abspath(os.path.join(base_path, f"{name}.sqlite"))
        shutil.copy2(value.db_file_path, target_path)

        return {"files": target_path}

    def export__database__as__sql_dump(
        self, value: KiaraDatabase, base_path: str, name: str
    ):
        """Export network data as a sql dump file."""

        import sqlite_utils

        db = sqlite_utils.Database(value.db_file_path)
        target_path = Path(os.path.join(base_path, f"{name}.sql"))
        with target_path.open("wt") as f:
            for line in db.conn.iterdump():
                f.write(line + "\n")

        return {"files": target_path.as_posix()}

    def export__database__as__csv_files(
        self, value: KiaraDatabase, base_path: str, name: str
    ):
        """Export network data as 2 csv files (one for edges, one for nodes."""

        import sqlite3

        files = []

        for table_name in value.table_names:
            target_path = os.path.join(base_path, f"{name}__{table_name}.csv")
            os.makedirs(os.path.dirname(target_path), exist_ok=True)

            # copied from: https://stackoverflow.com/questions/2952366/dump-csv-from-sqlalchemy
            con = sqlite3.connect(value.db_file_path)
            outfile = open(target_path, "wt")
            outcsv = csv.writer(outfile)

            cursor = con.execute(f"select * from {table_name}")
            # dump column titles (optional)
            outcsv.writerow(x[0] for x in cursor.description)
            # dump rows
            outcsv.writerows(cursor.fetchall())

            outfile.close()
            files.append(target_path)

        return {"files": files}