Hi Peter, As you guessed, this debug statement is not a true error and can be safely ignored. Its part of some undocumented features (read as don't try to use it yet). As this does seem to be causing some confusion lately, perhaps we should remove the log.debug until after the feature is ready, or provide additional information in the message to indicate that it can be safely ignored.
Thanks for using Galaxy, Dan On Jan 25, 2013, at 5:45 AM, Peter Cock wrote: > Hi all, > > Could someone explain to me what the "Error opening galaxy.json file" > logging means (set at DEBUG level so perhaps not really an error). I've > seen this when my development Galaxy is running normally (here I have > the logging set to show the DEBUG output) but also for the Galaxy unit > tests. > > e.g. > > galaxy.jobs.manager DEBUG 2013-01-25 10:37:45,645 (2) Job assigned to > handler 'main' > galaxy.jobs DEBUG 2013-01-25 10:37:50,899 (2) Working directory for > job is: /mnt/galaxy/galaxy-central/database/job_working_directory/000/2 > galaxy.jobs.handler DEBUG 2013-01-25 10:37:50,900 dispatching job 2 to > local runner > galaxy.jobs.handler INFO 2013-01-25 10:37:51,175 (2) Job dispatched > galaxy.jobs.runners.local DEBUG 2013-01-25 10:37:51,286 Local runner: > starting job 2 > galaxy.jobs.runners.local DEBUG 2013-01-25 10:37:51,820 executing: > python /mnt/galaxy/galaxy-central/tools/protein_analysis/tmhmm2.py > "$NSLOTS" /tmp/tmp6hm9Td/database/files/000/dataset_1.dat > /tmp/tmp6hm9Td/database/files/000/dataset_2.dat > galaxy.jobs.runners.local DEBUG 2013-01-25 10:38:11,967 execution > finished: python > /mnt/galaxy/galaxy-central/tools/protein_analysis/tmhmm2.py "$NSLOTS" > /tmp/tmp6hm9Td/database/files/000/dataset_1.dat > /tmp/tmp6hm9Td/database/files/000/dataset_2.dat > galaxy.tools DEBUG 2013-01-25 10:38:12,265 Error opening galaxy.json > file: [Errno 2] No such file or directory: > '/mnt/galaxy/galaxy-central/database/job_working_directory/000/2/galaxy.json' > galaxy.jobs DEBUG 2013-01-25 10:38:12,411 job 2 ended > > Thanks, > > Peter > ___________________________________________________________ > 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: > > http://lists.bx.psu.edu/ ___________________________________________________________ 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: http://lists.bx.psu.edu/
