Writing JSON column to Postgres using Pandas .to_sql - json

Question

During an ETL process I needed to extract and load a JSON column from one Postgres database to another. We use Pandas for this since it has so many ways to read and write data from different sources/destinations and all the transformations can be written using Python and Pandas. We're quite happy with the approach to be honest.. but we hit a problem.
Usually it's quite easy to read and write the data. You just use pandas.read_sql_table to read the data from the source and pandas.to_sql to write it to the destination. But, since one of the source tables had a column of type JSON (from Postgres) the to_sql function crashed with the following error message.
df.to_sql(table_name, analytics_db)
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/pandas/core/generic.py", line 1201, in to_sql
chunksize=chunksize, dtype=dtype)
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/pandas/io/sql.py", line 470, in to_sql
chunksize=chunksize, dtype=dtype)
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/pandas/io/sql.py", line 1147, in to_sql
table.insert(chunksize)
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/pandas/io/sql.py", line 663, in insert
self._execute_insert(conn, keys, chunk_iter)
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/pandas/io/sql.py", line 638, in _execute_insert
conn.execute(self.insert_statement(), data)
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/sqlalchemy/engine/base.py", line 945, in execute
return meth(self, multiparams, params)
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/sqlalchemy/sql/elements.py", line 263, in _execute_on_connection
return connection._execute_clauseelement(self, multiparams, params)
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/sqlalchemy/engine/base.py", line 1053, in _execute_clauseelement
compiled_sql, distilled_params
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/sqlalchemy/engine/base.py", line 1189, in _execute_context
context)
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/sqlalchemy/engine/base.py", line 1393, in _handle_dbapi_exception
exc_info
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/sqlalchemy/util/compat.py", line 202, in raise_from_cause
reraise(type(exception), exception, tb=exc_tb, cause=cause)
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/sqlalchemy/engine/base.py", line 1159, in _execute_context
context)
File "/home/ec2-user/python-virtual-environments/etl/local/lib64/python2.7/site-packages/sqlalchemy/engine/default.py", line 459, in do_executemany
cursor.executemany(statement, parameters)
sqlalchemy.exc.ProgrammingError: (psycopg2.ProgrammingError) can't adapt type 'dict'

Answer 1

I've been searching the web for a solution but couldn't find any so here is what we came up with (there might be better ways but at least this is a start if someone else runs into this).
Specify the dtype parameter in to_sql.
We went from:df.to_sql(table_name, analytics_db) to df.to_sql(table_name, analytics_db, dtype={'name_of_json_column_in_source_table': sqlalchemy.types.JSON}) and it just works.

Answer 2

If you (re-)create the JSON column using json.dumps(), you're all set.
This way the data can be written using pandas' .to_sql() method, but also the much faster COPY method of PostgreSQL (via copy_expert() of psycopg2 or sqlalchemy's raw_connection()) can be employed.
For the sake of simplicity, let's assume that we have a column of dictionaries that should be written into a JSON(B) column:
import json
import pandas as pd
df = pd.DataFrame([['row1',{'a':1, 'b':2}],
['row2',{'a':3,'b':4,'c':'some text'}]],
columns=['r','kv'])
# conversion function:
def dict2json(dictionary):
return json.dumps(dictionary, ensure_ascii=False)
# overwrite the dict column with json-strings
df['kv'] = df.kv.map(dict2json)

Answer 3

I am unable to comment peralmq's answer, but in case of postgresql JSONB you can use
from sqlalchemy import dialects
dataframe.to_sql(..., dtype={"json_column":dialects.postgresql.JSONB})