Re: [galaxy-dev] Seeking Job Metrics Clarity

On Wed, Feb 24, 2016 at 5:37 AM, Ziphozakhe Mashologu <zipho(a)sanbi.ac.za&gt; wrote: > Hi All > > I have enabled job metrics on a local galaxy install, with latest code > from dev branch. I have "<collectl /> " uncommented in job_metrics_conf.xml > file: > > Following are the errors in the logs: > > galaxy.jobs.metrics ERROR 2016-02-24 12:28:08,741 Failed to collect job > properties for plugin > <galaxy.jobs.metrics.instrumenters.collectl.CollectlPlugin object at > 0x7ff0b6af3a50> > Traceback (most recent call last): > File "dev/galaxy/lib/galaxy/jobs/metrics/__init__.py", line 101, in > collect_properties > properties = plugin.job_properties( job_id, job_directory ) > File "dev/galaxy/lib/galaxy/jobs/metrics/instrumenters/collectl.py", > line 105, in job_properties > raise Exception( message ) > Exception: Failed to find collectl log in directory > > It seems like collectl is looking for the following files: > > ['__instrument_collectl_pid', '__instrument_env_vars', 'galaxy.json', > 'metadata_kwds_HistoryDatasetAssociation_2_1rh1WC', > 'set_metadata_N05Q24.py', '__instrument_core_galaxy_slots', > 'metadata_results_HistoryDatasetAssociation_2_33gTDj', > '__instrument_core_epoch_start', 'galaxy_2.sh', > 'metadata_out_HistoryDatasetAssociation_2_G5bZYP', > '__instrument_core_epoch_end', '__instrument_meminfo_meminfo', > '__instrument_uname_uname', > 'metadata_override_HistoryDatasetAssociation_2_krldDM', > 'set_metadata_lpIXS5.py', 'metadata_in_HistoryDatasetAssociation_2_iiYW0t', > '__instrument_cpuinfo_cpuinfo', 'tool_script.sh', 'galaxy_2.ec'] > > Which are suppose to exist under > galaxy/database/job_working_directory/000 job directory. > > Has anybody faced anything similar issue or is it a configuration issue, > or perhaps a known issue with job_metrics (collectl)? > > BTW: I installed collectl packages on the host. > Hi Zipho, If this Galaxy instance runs jobs on a cluster, you would also need collectl to be installed on the cluster. --nate > > Regards > Zipho > > > ___________________________________________________________ > Please keep all replies on the list by using "reply all" > in your mail client. To manage your subscriptions to this > and other Galaxy lists, please use the interface at: > https://lists.galaxyproject.org/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/ >