Problem while bench update - error in your SQL syntax

Install / Update Setup
1

I was just updating my instance using bench update --reset --no-backup and it end with an error ie,

Migrating site1.local
Updating DocTypes for frappe        : [========================================]
Updating DocTypes for erpnext       : [=======                                 ]                                                                                        Traceback (most recent call last):
  File "/usr/lib/python2.7/runpy.py", line 174, in _run_module_as_main
    "__main__", fname, loader, pkg_name)
  File "/usr/lib/python2.7/runpy.py", line 72, in _run_code
    exec code in run_globals
  File "/home/frappe/frappe-bench/apps/frappe/frappe/utils/bench_helper.py", line 97, in <module>
    main()
  File "/home/frappe/frappe-bench/apps/frappe/frappe/utils/bench_helper.py", line 18, in main
    click.Group(commands=commands)(prog_name='bench')
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/click/core.py", line 764, in __call__
    return self.main(*args, **kwargs)
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/click/core.py", line 717, in main
    rv = self.invoke(ctx)
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/click/core.py", line 1137, in invoke
    return _process_result(sub_ctx.command.invoke(sub_ctx))
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/click/core.py", line 1137, in invoke
    return _process_result(sub_ctx.command.invoke(sub_ctx))
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/click/core.py", line 956, in invoke
    return ctx.invoke(self.callback, **ctx.params)
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/click/core.py", line 555, in invoke
    return callback(*args, **kwargs)
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/click/decorators.py", line 17, in new_func
    return f(get_current_context(), *args, **kwargs)
  File "/home/frappe/frappe-bench/apps/frappe/frappe/commands/__init__.py", line 25, in _func
    ret = f(frappe._dict(ctx.obj), *args, **kwargs)
  File "/home/frappe/frappe-bench/apps/frappe/frappe/commands/site.py", line 227, in migrate
    migrate(context.verbose, rebuild_website=rebuild_website)
  File "/home/frappe/frappe-bench/apps/frappe/frappe/migrate.py", line 41, in migrate
    frappe.model.sync.sync_all(verbose=verbose)
  File "/home/frappe/frappe-bench/apps/frappe/frappe/model/sync.py", line 19, in sync_all
    sync_for(app, force, verbose=verbose, reset_permissions=reset_permissions)
  File "/home/frappe/frappe-bench/apps/frappe/frappe/model/sync.py", line 56, in sync_for
    reset_permissions=reset_permissions, for_sync=True)
  File "/home/frappe/frappe-bench/apps/frappe/frappe/modules/import_file.py", line 65, in import_file_by_path
    ignore_version=ignore_version, reset_permissions=reset_permissions)
  File "/home/frappe/frappe-bench/apps/frappe/frappe/modules/import_file.py", line 132, in import_doc
    doc.insert()
  File "/home/frappe/frappe-bench/apps/frappe/frappe/model/document.py", line 249, in insert
    self.run_post_save_methods()
  File "/home/frappe/frappe-bench/apps/frappe/frappe/model/document.py", line 905, in run_post_save_methods
    self.run_method("on_update")
  File "/home/frappe/frappe-bench/apps/frappe/frappe/model/document.py", line 772, in run_method
    out = Document.hook(fn)(self, *args, **kwargs)
  File "/home/frappe/frappe-bench/apps/frappe/frappe/model/document.py", line 1048, in composer
    return composed(self, method, *args, **kwargs)
  File "/home/frappe/frappe-bench/apps/frappe/frappe/model/document.py", line 1031, in runner
    add_to_return_value(self, fn(self, *args, **kwargs))
  File "/home/frappe/frappe-bench/apps/frappe/frappe/model/document.py", line 766, in <lambda>
    fn = lambda self, *args, **kwargs: getattr(self, method)(*args, **kwargs)
  File "/home/frappe/frappe-bench/apps/frappe/frappe/core/doctype/doctype/doctype.py", line 242, in on_update
    self.delete_duplicate_custom_fields()
  File "/home/frappe/frappe-bench/apps/frappe/frappe/core/doctype/doctype/doctype.py", line 288, in delete_duplicate_custom_fields
    '''.format('%s', ', '.join(['%s'] * len(fields))), tuple([self.name] + fields), as_dict=True)
  File "/home/frappe/frappe-bench/apps/frappe/frappe/database.py", line 199, in sql
    self._cursor.execute(query, values)
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/pymysql/cursors.py", line 170, in execute
    result = self._query(query)
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/pymysql/cursors.py", line 328, in _query
    conn.query(q)
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/pymysql/connections.py", line 516, in query
    self._affected_rows = self._read_query_result(unbuffered=unbuffered)
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/pymysql/connections.py", line 727, in _read_query_result
    result.read()
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/pymysql/connections.py", line 1066, in read
    first_packet = self.connection._read_packet()
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/pymysql/connections.py", line 683, in _read_packet
    packet.check_error()
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/pymysql/protocol.py", line 220, in check_error
    err.raise_mysql_exception(self._data)
  File "/home/frappe/frappe-bench/env/local/lib/python2.7/site-packages/pymysql/err.py", line 109, in raise_mysql_exception
    raise errorclass(errno, errval)
pymysql.err.ProgrammingError: (1064, u"You have an error in your SQL syntax; check the manual that corresponds to your MariaDB server version for the right syntax to use near ')' at line 4")
frappe@erpnext-OptiPlex-390:~/frappe-bench$

and on home screen image

Please resolve this

2

please check your sql statement in py file

3

I hadn’t created any. I was just doing bench update

4

use following command and check
bench restart
bench clear-cache
bench build
bench restart
and then do bench update

5

Performed exactly the same. Still same error arised. Seems like its error in latest staging’s core file

6

Yup, I’m sure its some issue/conflict with the core files. Please resolve this as I was working on middle of something at that instance

7

One of the bench commands suggested above may already do this, but to recompile the code may fix the problem?

frappe-bench > cd apps/frappe
frappe-bench/apps/frappe > find . -name "*.pyc" | xargs rm -f
8

Not worked. Still facing the same issue

9

I am facing the same issue. can you please tell how did you solved this?

10

Do you have any custom scripts/pages?
Have you done a bench migrate?
Can you share/show the traceback/screenshot?

11

Yes i was writing custom script. I have an error. on searching someone said to bench migrate. when i did. this error started coming in terminal.

error is:
pymysql.err.ProgrammingError: (1064, u"You have an error in your SQL syntax; check the manual that corresponds to your MariaDB server version for the right syntax to use near ‘)’ at line 4")

12

If you have custom items, they often affect the update. Best option is to temporarily uninstall them, do the update, and then reinstall