Dear list,
I'm trying to switch from galaxy.ini to yml on my dev instance (using a drmaa runner starting jobs as real user). Somehow my jobs are not starting anymore (it seems that they are not given to the job handler). The only output I get is:
galaxy.tools.actions INFO 2018-06-27 13:11:37,445 [p:19863,w:1,m:0] [uWSGIWorker1Core2] Handled output named output for tool idba_ud (25965.752 ms) galaxy.tools.actions INFO 2018-06-27 13:11:37,459 [p:19863,w:1,m:0] [uWSGIWorker1Core2] Added output datasets to history (13.657 ms) galaxy.tools.actions INFO 2018-06-27 13:11:37,484 [p:19863,w:1,m:0] [uWSGIWorker1Core2] Verified access to datasets for Job[unflushed,tool_id=idba_ud] (5.423 ms) galaxy.tools.actions INFO 2018-06-27 13:11:37,484 [p:19863,w:1,m:0] [uWSGIWorker1Core2] Setup for job Job[unflushed,tool_id=idba_ud] complete, ready to flush (25.058 ms) galaxy.tools.actions INFO 2018-06-27 13:11:37,522 [p:19863,w:1,m:0] [uWSGIWorker1Core2] Flushed transaction for job Job[id=4366,tool_id=idba_ud] (37.777 ms) galaxy.tools.execute DEBUG 2018-06-27 13:11:37,522 [p:19863,w:1,m:0] [uWSGIWorker1Core2] Tool [idba_ud] created job [4366] (26050.612 ms) galaxy.tools.execute DEBUG 2018-06-27 13:11:37,538 [p:19863,w:1,m:0] [uWSGIWorker1Core2] Executed 1 job(s) for tool idba_ud request: (26075.593 ms)
In addition to manual conversion I tried the auto conversion using `make config-convert` with the same result.
I also tried to validate the yml file:
``` make config-validate ```
but get only:
``` pykwalify.errors.RuleError: <RuleError: error code 4: Types do not match: 'None' --> '<type 'str'>': Path: '/mapping/galaxy/mapping/error_email_to'> ```
Any ideas where I could start digging?
Cheers, Matthias