[MSNoise] Error after install
Healy, David
d.healy at abdn.ac.uk
Thu Oct 7 08:16:12 UTC 2021
OK, that fails too with similar error messages to last time. Will keep digging...
Cheers,
Dave
David Healy [he/him]
School of Geosciences
Meston Walk
University of Aberdeen
Aberdeen AB24 3UE
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On 07/10/2021, 09:15, "msnoise-bounces at mailman-as.oma.be on behalf of Thomas Lecocq" <msnoise-bounces at mailman-as.oma.be on behalf of Thomas.Lecocq at seismology.be> wrote:
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Hi,
if you "msnoise db init" in the project folder, it'll create the tables
for you
thomas
Le 07/10/2021 à 10:14, Healy, David a écrit :
> OK thanks.
>
> After setting up the default/basic 'msnoise' database in MySQL, do *I* need to build a table called 'config'? or is that automatic?
>
> Cheers,
> Dave
>
> David Healy [he/him]
> School of Geosciences
> Meston Walk
> University of Aberdeen
> Aberdeen AB24 3UE
>
> My working day may not be your working day. Please do not feel obliged to reply to this e-mail outside of your normal working hours.
>
> Publications: https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fscholar.google.com%2Fcitations%3Fhl%3Den%26user%3Dug9DnVoAAAAJ&data=04%7C01%7Cd.healy%40abdn.ac.uk%7Cb396c90da8ff4a55bdba08d9896aa891%7C8c2b19ad5f9c49d490773ec3cfc52b3f%7C0%7C0%7C637691913460390120%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=O8pdCBpJ5IjTXAf8nt76QtqYYhkoLok5zuBS0HRzDhg%3D&reserved=0
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>
>
> On 06/10/2021, 13:40, "msnoise-bounces at mailman-as.oma.be on behalf of Thomas Lecocq" <msnoise-bounces at mailman-as.oma.be on behalf of Thomas.Lecocq at seismology.be> wrote:
>
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>
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>
>
> Hey Dave,
>
> it seems there are lots of issues with some recent codebase changes in
> dependencies, leading to crazy errors in the test suite.
>
> You should go ahead and try making a small project folder, and running
> the workflow,
>
> Let me know how it goes,
>
> Thomas
>
> Le 06/10/2021 à 14:32, Healy, David a écrit :
> > Hello
> >
> > I’m trying to install MSNoise, but keep getting unintelligible (to me) errors when running msnoise test:
> > *****
> > Traceback (most recent call last):
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/engine/base.py", line 1276, in _execute_context
> > self.dialect.do_execute(
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/engine/default.py", line 593, in do_execute
> > cursor.execute(statement, parameters)
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/cursors.py", line 148, in execute
> > result = self._query(query)
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/cursors.py", line 310, in _query
> > conn.query(q)
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/connections.py", line 548, in query
> > self._affected_rows = self._read_query_result(unbuffered=unbuffered)
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/connections.py", line 775, in _read_query_result
> > result.read()
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/connections.py", line 1156, in read
> > first_packet = self.connection._read_packet()
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/connections.py", line 725, in _read_packet
> > packet.raise_for_error()
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/protocol.py", line 221, in raise_for_error
> > err.raise_mysql_exception(self._data)
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/err.py", line 143, in raise_mysql_exception
> > raise errorclass(errno, errval)
> > pymysql.err.ProgrammingError: (1146, "Table 'msnoise.config' doesn't exist")
> >
> > The above exception was the direct cause of the following exception:
> >
> > Traceback (most recent call last):
> > File "/opt/anaconda3/bin/msnoise", line 5, in <module>
> > from msnoise.scripts.msnoise import run
> > File "/opt/anaconda3/lib/python3.8/site-packages/msnoise/scripts/msnoise.py", line 1183, in <module>
> > plugins = get_config(db, "plugins")
> > File "/opt/anaconda3/lib/python3.8/site-packages/msnoise/api.py", line 215, in get_config
> > config = session.query(table).filter(table.name == name).first()
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/orm/query.py", line 3429, in first
> > ret = list(self[0:1])
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/orm/query.py", line 3203, in __getitem__
> > return list(res)
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/orm/query.py", line 3535, in __iter__
> > return self._execute_and_instances(context)
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/orm/query.py", line 3560, in _execute_and_instances
> > result = conn.execute(querycontext.statement, self._params)
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/engine/base.py", line 1011, in execute
> > return meth(self, multiparams, params)
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/sql/elements.py", line 298, in _execute_on_connection
> > return connection._execute_clauseelement(self, multiparams, params)
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/engine/base.py", line 1124, in _execute_clauseelement
> > ret = self._execute_context(
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/engine/base.py", line 1316, in _execute_context
> > self._handle_dbapi_exception(
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/engine/base.py", line 1510, in _handle_dbapi_exception
> > util.raise_(
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/util/compat.py", line 182, in raise_
> > raise exception
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/engine/base.py", line 1276, in _execute_context
> > self.dialect.do_execute(
> > File "/opt/anaconda3/lib/python3.8/site-packages/sqlalchemy/engine/default.py", line 593, in do_execute
> > cursor.execute(statement, parameters)
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/cursors.py", line 148, in execute
> > result = self._query(query)
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/cursors.py", line 310, in _query
> > conn.query(q)
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/connections.py", line 548, in query
> > self._affected_rows = self._read_query_result(unbuffered=unbuffered)
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/connections.py", line 775, in _read_query_result
> > result.read()
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/connections.py", line 1156, in read
> > first_packet = self.connection._read_packet()
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/connections.py", line 725, in _read_packet
> > packet.raise_for_error()
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/protocol.py", line 221, in raise_for_error
> > err.raise_mysql_exception(self._data)
> > File "/opt/anaconda3/lib/python3.8/site-packages/pymysql/err.py", line 143, in raise_mysql_exception
> > raise errorclass(errno, errval)
> > sqlalchemy.exc.ProgrammingError: (pymysql.err.ProgrammingError) (1146, "Table 'msnoise.config' doesn't exist")
> > [SQL: SELECT config.name AS config_name, config.value AS config_value
> > FROM config
> > WHERE config.name = %(name_1)s
> > LIMIT %(param_1)s]
> > [parameters: {'name_1': 'plugins', 'param_1': 1}]
> > (Background on this error at: https://eur03.safelinks.protection.outlook.com/?url=http%3A%2F%2Fsqlalche.me%2Fe%2F13%2Ff405&data=04%7C01%7Cd.healy%40abdn.ac.uk%7Cb396c90da8ff4a55bdba08d9896aa891%7C8c2b19ad5f9c49d490773ec3cfc52b3f%7C0%7C0%7C637691913460400112%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=Ke3LZSqZ7SO4yncpg0r7b6rCWFMQNnFYOkXITWlxCL0%3D&reserved=0)
> > *****
> >
> > I’ve got all the required Python packages, MySQLServer and Workbench versions 8.0.18 (compatible with my macOS Mojave 10.14.6). Local database and user are set-up.
> >
> > Any ideas?
> >
> > Thanks,
> > Dave
> >
> > David Healy [he/him]
> > School of Geosciences
> > Meston Walk
> > University of Aberdeen
> > Aberdeen AB24 3UE
> >
> > My working day may not be your working day. Please do not feel obliged to reply to this e-mail outside of your normal working hours.
> >
> > Publications: https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fscholar.google.com%2Fcitations%3Fhl%3Den%26user%3Dug9DnVoAAAAJ&data=04%7C01%7Cd.healy%40abdn.ac.uk%7Cb396c90da8ff4a55bdba08d9896aa891%7C8c2b19ad5f9c49d490773ec3cfc52b3f%7C0%7C0%7C637691913460400112%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=kFpoq0LbNb7aO1bjV2MQX2IJZCy6bPJ6RPdm5JXFz3E%3D&reserved=0
> > Software: https://eur03.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.fracturedrockphysics.com%2Fsoftware.html&data=04%7C01%7Cd.healy%40abdn.ac.uk%7Cb396c90da8ff4a55bdba08d9896aa891%7C8c2b19ad5f9c49d490773ec3cfc52b3f%7C0%7C0%7C637691913460400112%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=A3%2F8WemtQLoU75RcSpHALJ87C6%2Fqr8%2BXFFPWEqzFJ0A%3D&reserved=0
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> >
> >
> >
> > The University of Aberdeen is a charity registered in Scotland, No SC013683.
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>
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