E, [2017-04-11T18:24:37.426324 #23613] ERROR -- : ["Exception: could not LANG=C grep -v '_:genid' /tmp/file_nobnodes20170411-23613-3j3bzx/data.nt > /tmp/file_nobnodes20170411-23613-3j3bzx/data_no_bnodes.nt: \n/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/goo-7f1b081ffc8c/lib/goo/sparql/client.rb:65:in bnodes_filter_file'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/goo-7f1b081ffc8c/lib/goo/sparql/client.rb:80:inappend_triples_no_bnodes'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/goo-7f1b081ffc8c/lib/goo/sparql/client.rb:128:in put_triples'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/ontologies_linked_data-0a02d50ea791/lib/ontologies_linked_data/models/ontology_submission.rb:1411:indelete_and_append'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/ontologies_linked_data-0a02d50ea791/lib/ontologies_linked_data/models/ontology_submission.rb:438:in generate_rdf'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/ontologies_linked_data-0a02d50ea791/lib/ontologies_linked_data/models/ontology_submission.rb:892:inprocess_submission'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/ontology_submission_parser.rb:177:in process_submission'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/ontology_submission_parser.rb:47:inblock in process_queue_submissions'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/ontology_submission_parser.rb:41:in each'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/ontology_submission_parser.rb:41:inprocess_queue_submissions'\n\t/srv/ncbo/ncbo_cron/bin/ncbo_cron:228:in block (3 levels) in <main>'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/scheduler.rb:65:inblock (3 levels) in scheduled_locking_job'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/scheduler.rb:51:in fork'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/scheduler.rb:51:inblock (2 levels) in scheduled_locking_job'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/gems/mlanett-redis-lock-0.2.7/lib/redis-lock.rb:43:in lock'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/gems/mlanett-redis-lock-0.2.7/lib/redis-lock.rb:234:inlock'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/scheduler.rb:50:in block in scheduled_locking_job'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/gems/rufus-scheduler-2.0.24/lib/rufus/sc/jobs.rb:230:intrigger_block'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/gems/rufus-scheduler-2.0.24/lib/rufus/sc/jobs.rb:204:in block in trigger'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/gems/rufus-scheduler-2.0.24/lib/rufus/sc/scheduler.rb:430:inblock in trigger_job'"]
The log traces appear as:
E, [2017-04-11T18:24:37.426324 #23613] ERROR -- : ["Exception: could not
LANG=C grep -v '_:genid' /tmp/file_nobnodes20170411-23613-3j3bzx/data.nt > /tmp/file_nobnodes20170411-23613-3j3bzx/data_no_bnodes.nt: \n/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/goo-7f1b081ffc8c/lib/goo/sparql/client.rb:65:inbnodes_filter_file'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/goo-7f1b081ffc8c/lib/goo/sparql/client.rb:80:inappend_triples_no_bnodes'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/goo-7f1b081ffc8c/lib/goo/sparql/client.rb:128:input_triples'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/ontologies_linked_data-0a02d50ea791/lib/ontologies_linked_data/models/ontology_submission.rb:1411:indelete_and_append'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/ontologies_linked_data-0a02d50ea791/lib/ontologies_linked_data/models/ontology_submission.rb:438:ingenerate_rdf'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/bundler/gems/ontologies_linked_data-0a02d50ea791/lib/ontologies_linked_data/models/ontology_submission.rb:892:inprocess_submission'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/ontology_submission_parser.rb:177:inprocess_submission'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/ontology_submission_parser.rb:47:inblock in process_queue_submissions'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/ontology_submission_parser.rb:41:ineach'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/ontology_submission_parser.rb:41:inprocess_queue_submissions'\n\t/srv/ncbo/ncbo_cron/bin/ncbo_cron:228:inblock (3 levels) in <main>'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/scheduler.rb:65:inblock (3 levels) in scheduled_locking_job'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/scheduler.rb:51:infork'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/scheduler.rb:51:inblock (2 levels) in scheduled_locking_job'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/gems/mlanett-redis-lock-0.2.7/lib/redis-lock.rb:43:inlock'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/gems/mlanett-redis-lock-0.2.7/lib/redis-lock.rb:234:inlock'\n\t/srv/ncbo/ncbo_cron/lib/ncbo_cron/scheduler.rb:50:inblock in scheduled_locking_job'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/gems/rufus-scheduler-2.0.24/lib/rufus/sc/jobs.rb:230:intrigger_block'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/gems/rufus-scheduler-2.0.24/lib/rufus/sc/jobs.rb:204:inblock in trigger'\n\t/srv/ncbo/ncbo_cron/vendor/bundle/ruby/2.3.0/gems/rufus-scheduler-2.0.24/lib/rufus/sc/scheduler.rb:430:inblock in trigger_job'"]