Thanks, that fixed it, they were uncommented! CHeers m
-- Michael Pheasant Software Engineer Queensland Facility for Advanced Bioinformatics Level 6, QBP University of Queensland, QLD 4072 T: +61 (0)7 3346 2070 F: +61 (0)7 3346 2101 www.qfab.org
On Wed, Jun 2, 2010 at 9:56 AM, James Taylor james@bx.psu.edu wrote:
Have you uncommented either of:
#database_engine_option_echo = true #database_engine_option_echo_pool = true
In you universe_wsgi.ini?
On Jun 1, 2010, at 7:53 PM, Michael Pheasant wrote:
using run script with single web server/jobrunner: universe_wsgi.ini: log_level = WARNING enable_job_running = True
*) During the startup sequence there is a bunch of INFO stuff;
2010-06-02 09:49:55,321 INFO sqlalchemy.pool.QueuePool.0x...8410 Created new connection <_mysql.connection open to 'localhost' at 1aab1730> sqlalchemy.pool.QueuePool.0x...8410 INFO 2010-06-02 09:49:55,321 Created new connection <_mysql.connection open to 'localhost' at 1aab1730> 2010-06-02 09:49:55,321 INFO sqlalchemy.pool.QueuePool.0x...8410 Connection <_mysql.connection open to 'localhost' at 1aab1730> checked out from pool sqlalchemy.pool.QueuePool.0x...8410 INFO 2010-06-02 09:49:55,321 Connection <_mysql.connection open to 'localhost' at 1aab1730> checked out from pool 2010-06-02 09:49:55,322 INFO sqlalchemy.engine.base.Engine.0x...85d0 SHOW VARIABLES LIKE 'character_set%%' sqlalchemy.engine.base.Engine.0x...85d0 INFO 2010-06-02 09:49:55,322 SHOW VARIABLES LIKE 'character_set%%' 2010-06-02 09:49:55,322 INFO sqlalchemy.engine.base.Engine.0x...85d0 () sqlalchemy.engine.base.Engine.0x...85d0 INFO 2010-06-02 09:49:55,322 () 2010-06-02 09:49:55,323 INFO sqlalchemy.engine.base.Engine.0x...85d0 SHOW VARIABLES LIKE 'sql_mode' sqlalchemy.engine.base.Engine.0x...85d0 INFO 2010-06-02 09:49:55,323 SHOW VARIABLES LIKE 'sql_mode' 2010-06-02 09:49:55,323 INFO sqlalchemy.engine.base.Engine.0x...85d0 () sqlalchemy.engine.base.Engine.0x...85d0 INFO 2010-06-02 09:49:55,323 () 2010-06-02 09:49:55,348 INFO sqlalchemy.engine.base.Engine.0x...85d0 SHOW CREATE TABLE dataset sqlalchemy.engine.base.Engine.0x...85d0 INFO 2010-06-02 09:49:55,348 SHOW CREATE TABLE dataset 2010-06-02 09:49:55,348 INFO sqlalchemy.engine.base.Engine.0x...85d0 ()
Then every second there is the database ping for jobs;
sqlalchemy.engine.base.Engine.0x...0e50 INFO 2010-06-02 09:50:15,153 SELECT job.id AS job_id, job.create_time AS job_create_time, job.update_time AS job_update_time, job.history_id AS job_history_id, job.library_folder_id AS job_library_folder_id, job.tool_id AS job_tool_id, job.tool_version AS job_tool_version, job.state AS job_state, job.info AS job_info, job.command_line AS job_command_line, job.param_filename AS job_param_filename, job.runner_name AS job_runner_name_1, job.stdout AS job_stdout, job.stderr AS job_stderr, job.traceback AS job_traceback, job.session_id AS job_session_id, job.job_runner_name AS job_job_runner_name, job.job_runner_external_id AS job_job_runner_external_id, library_dataset_dataset_association_1.id AS library_dataset_dataset_association_1_id, library_dataset_dataset_association_1.library_dataset_id AS library_dataset_dataset_association_1_library_dataset_id, library_dataset_dataset_association_1.dataset_id AS library_dataset_dataset_association_1_dataset_id, library_dataset_dataset_association_1.create_time AS library_dataset_dataset_association_1_create_time, library_dataset_dataset_association_1.update_time AS library_dataset_dataset_association_1_update_time,
library_dataset_dataset_association_1.copied_from_history_dataset_association_id AS library_dataset_dataset_association_1_copied_from_history_dataset_association_id,
library_dataset_dataset_association_1.copied_from_library_dataset_dataset_association_id AS library_dataset_dataset_association_1_copied_from_library_dataset_dataset_association_id, library_dataset_dataset_association_1.name AS library_dataset_dataset_association_1_name, library_dataset_dataset_association_1.info AS library_dataset_dataset_association_1_info, library_dataset_dataset_association_1.blurb AS library_dataset_dataset_association_1_blurb, library_dataset_dataset_association_1.peek AS library_dataset_dataset_association_1_peek, library_dataset_dataset_association_1.extension AS library_dataset_dataset_association_1_extension, library_dataset_dataset_association_1.metadata AS library_dataset_dataset_association_1_metadata, library_dataset_dataset_association_1.parent_id AS library_dataset_dataset_association_1_parent_id, library_dataset_dataset_association_1.designation AS library_dataset_dataset_association_1_designation, library_dataset_dataset_association_1.deleted AS library_dataset_dataset_association_1_deleted, library_dataset_dataset_association_1.visible AS library_dataset_dataset_association_1_visible, library_dataset_dataset_association_1.user_id AS library_dataset_dataset_association_1_user_id, library_dataset_dataset_association_1.message AS library_dataset_dataset_association_1_message, job_to_output_library_dataset_1.id AS job_to_output_library_dataset_1_id, job_to_output_library_dataset_1.job_id AS job_to_output_library_dataset_1_job_id, job_to_output_library_dataset_1.ldda_id AS job_to_output_library_dataset_1_ldda_id, job_to_output_library_dataset_1.name AS job_to_output_library_dataset_1_name, dataset_1.id AS dataset_1_id, dataset_1.create_time AS dataset_1_create_time, dataset_1.update_time AS dataset_1_update_time, dataset_1.state AS dataset_1_state, dataset_1.deleted AS dataset_1_deleted, dataset_1.purged AS dataset_1_purged, dataset_1.purgable AS dataset_1_purgable, dataset_1.external_filename AS dataset_1_external_filename, dataset_1._extra_files_path AS dataset_1__extra_files_path, dataset_1.file_size AS dataset_1_file_size, history_dataset_association_1.id AS history_dataset_association_1_id, history_dataset_association_1.history_id AS history_dataset_association_1_history_id, history_dataset_association_1.dataset_id AS history_dataset_association_1_dataset_id, history_dataset_association_1.create_time AS history_dataset_association_1_create_time, history_dataset_association_1.update_time AS history_dataset_association_1_update_time, history_dataset_association_1.copied_from_history_dataset_association_id AS history_dataset_association_1_copied_from_history_dataset_association_id,
history_dataset_association_1.copied_from_library_dataset_dataset_association_id AS history_dataset_association_1_copied_from_library_dataset_dataset_association_id, history_dataset_association_1.hid AS history_dataset_association_1_hid, history_dataset_association_1.name AS history_dataset_association_1_name, history_dataset_association_1.info AS history_dataset_association_1_info, history_dataset_association_1.blurb AS history_dataset_association_1_blurb, history_dataset_association_1.peek AS history_dataset_association_1_peek, history_dataset_association_1.extension AS history_dataset_association_1_extension, history_dataset_association_1.metadata AS history_dataset_association_1_metadata, history_dataset_association_1.parent_id AS history_dataset_association_1_parent_id, history_dataset_association_1.designation AS history_dataset_association_1_designation, history_dataset_association_1.deleted AS history_dataset_association_1_deleted, history_dataset_association_1.visible AS history_dataset_association_1_visible, job_to_input_dataset_1.id AS job_to_input_dataset_1_id, job_to_input_dataset_1.job_id AS job_to_input_dataset_1_job_id, job_to_input_dataset_1.dataset_id AS job_to_input_dataset_1_dataset_id, job_to_input_dataset_1.name AS job_to_input_dataset_1_name, dataset_2.id AS dataset_2_id, dataset_2.create_time AS dataset_2_create_time, dataset_2.update_time AS dataset_2_update_time, dataset_2.state AS dataset_2_state, dataset_2.deleted AS dataset_2_deleted, dataset_2.purged AS dataset_2_purged, dataset_2.purgable AS dataset_2_purgable, dataset_2.external_filename AS dataset_2_external_filename, dataset_2._extra_files_path AS dataset_2__extra_files_path, dataset_2.file_size AS dataset_2_file_size, history_dataset_association_2.id AS history_dataset_association_2_id, history_dataset_association_2.history_id AS history_dataset_association_2_history_id, history_dataset_association_2.dataset_id AS history_dataset_association_2_dataset_id, history_dataset_association_2.create_time AS history_dataset_association_2_create_time, history_dataset_association_2.update_time AS history_dataset_association_2_update_time, history_dataset_association_2.copied_from_history_dataset_association_id AS history_dataset_association_2_copied_from_history_dataset_association_id,
history_dataset_association_2.copied_from_library_dataset_dataset_association_id AS history_dataset_association_2_copied_from_library_dataset_dataset_association_id, history_dataset_association_2.hid AS history_dataset_association_2_hid, history_dataset_association_2.name AS history_dataset_association_2_name, history_dataset_association_2.info AS history_dataset_association_2_info, history_dataset_association_2.blurb AS history_dataset_association_2_blurb, history_dataset_association_2.peek AS history_dataset_association_2_peek, history_dataset_association_2.extension AS history_dataset_association_2_extension, history_dataset_association_2.metadata AS history_dataset_association_2_metadata, history_dataset_association_2.parent_id AS history_dataset_association_2_parent_id, history_dataset_association_2.designation AS history_dataset_association_2_designation, history_dataset_association_2.deleted AS history_dataset_association_2_deleted, history_dataset_association_2.visible AS history_dataset_association_2_visible, job_to_output_dataset_1.id AS job_to_output_dataset_1_id, job_to_output_dataset_1.job_id AS job_to_output_dataset_1_job_id, job_to_output_dataset_1.dataset_id AS job_to_output_dataset_1_dataset_id, job_to_output_dataset_1.name AS job_to_output_dataset_1_name FROM job LEFT OUTER JOIN job_to_output_library_dataset AS job_to_output_library_dataset_1 ON job.id = job_to_output_library_dataset_1.job_id LEFT OUTER JOIN library_dataset_dataset_association AS library_dataset_dataset_association_1 ON library_dataset_dataset_association_1.id = job_to_output_library_dataset_1.ldda_id LEFT OUTER JOIN job_to_input_dataset AS job_to_input_dataset_1 ON job.id = job_to_input_dataset_1.job_id LEFT OUTER JOIN history_dataset_association AS history_dataset_association_1 ON history_dataset_association_1.id = job_to_input_dataset_1.dataset_id LEFT OUTER JOIN dataset AS dataset_1 ON dataset_1.id = history_dataset_association_1.dataset_id LEFT OUTER JOIN job_to_output_dataset AS job_to_output_dataset_1 ON job.id = job_to_output_dataset_1.job_id LEFT OUTER JOIN history_dataset_association AS history_dataset_association_2 ON history_dataset_association_2.id = job_to_output_dataset_1.dataset_id LEFT OUTER JOIN dataset AS dataset_2 ON dataset_2.id = history_dataset_association_2.dataset_id WHERE job.state = %s 2010-06-02 09:50:15,154 INFO sqlalchemy.engine.base.Engine.0x...0e50 ['new'] sqlalchemy.engine.base.Engine.0x...0e50 INFO 2010-06-02 09:50:15,154 ['new'] 2010-06-02 09:50:15,157 INFO sqlalchemy.pool.QueuePool.0x...0c90 Connection <_mysql.connection open to 'localhost' at 1b0894d0> being returned to pool sqlalchemy.pool.QueuePool.0x...0c90 INFO 2010-06-02 09:50:15,157 Connection <_mysql.connection open to 'localhost' at 1b0894d0> being returned to pool
cheers m
-- Michael Pheasant Software Engineer Queensland Facility for Advanced Bioinformatics Level 6, QBP University of Queensland, QLD 4072 T: +61 (0)7 3346 2070 F: +61 (0)7 3346 2101 www.qfab.org
On Tue, Jun 1, 2010 at 11:24 PM, Nate Coraor nate@bx.psu.edu wrote:
Michael Pheasant wrote:
Using the run.sh script, and the default 'log_level = DEBUG' universe_wsgi.ini file setting gives a huge amount of output.
Changing the ini to either log_level = INFO, WARNING or ERROR and i get the same output, including the INFO messages every second.
I assumed that WARNING or ERROR would not give the INFO messages; is there some way to not see these?
Hi Michael,
Can you provide an example of which INFO messages still appear? WARNING is suppressing everything above the WARNING level for me.
--nate
Cheers m
-- Michael Pheasant Software Engineer Queensland Facility for Advanced Bioinformatics Level 6, QBP University of Queensland, QLD 4072 T: +61 (0)7 3346 2070 F: +61 (0)7 3346 2101 www.qfab.org _______________________________________________ galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev
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