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August 13, 2014 10:28
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(sqmpy-env)pc-p282(/W5/sade/workspace/simple-queue-manager) SAGA_VERBOSE=DEBUG python run.py | |
2014:08:13 12:27:00 MainThread saga : [INFO ] saga-python version: 0.17 | |
* Running on http://0.0.0.0:5001/ | |
* Restarting with reloader | |
2014:08:13 12:27:02 MainThread saga : [INFO ] saga-python version: 0.17 | |
in submit.... before wrapper initialization | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.context.myproxy | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.context.myproxy for saga.Context API with URL scheme(s) ['myproxy://'] | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.context.x509 | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.context.x509 for saga.Context API with URL scheme(s) ['x509://'] | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.context.ssh | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.context.ssh for saga.Context API with URL scheme(s) ['ssh://'] | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.context.userpass | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.context.userpass for saga.Context API with URL scheme(s) ['userpass://'] | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.shell.shell_job | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.shell.shell_job for saga.job.Service API with URL scheme(s) ['fork://', 'local://', 'ssh://', 'gsissh://'] | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.shell.shell_job for saga.job.Job API with URL scheme(s) ['fork://', 'local://', 'ssh://', 'gsissh://'] | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.shell.shell_file | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.shell.shell_file for saga.namespace.Directory API with URL scheme(s) ['file://', 'local://', 'sftp://', 'gsisftp://', 'ssh://', 'gsissh://'] | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.shell.shell_file for saga.namespace.Entry API with URL scheme(s) ['file://', 'local://', 'sftp://', 'gsisftp://', 'ssh://', 'gsissh://'] | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.shell.shell_file for saga.filesystem.Directory API with URL scheme(s) ['file://', 'local://', 'sftp://', 'gsisftp://', 'ssh://', 'gsissh://'] | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.shell.shell_file for saga.filesystem.File API with URL scheme(s) ['file://', 'local://', 'sftp://', 'gsisftp://', 'ssh://', 'gsissh://'] | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.shell.shell_resource | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [WARNING ] Skipping adaptor saga.adaptors.shell.shell_resource: beta versions are disabled (v0.1.beta) | |
2014:08:13 12:27:05 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.redis.redis_advert | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [WARNING ] Skipping adaptor saga.adaptors.redis.redis_advert: beta versions are disabled (v0.2.beta) | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.sge.sgejob | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.sge.sgejob for saga.job.Service API with URL scheme(s) ['sge://', 'sge+ssh://', 'sge+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.sge.sgejob for saga.job.Job API with URL scheme(s) ['sge://', 'sge+ssh://', 'sge+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.pbs.pbsjob | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.pbs.pbsjob for saga.job.Service API with URL scheme(s) ['pbs://', 'pbs+ssh://', 'pbs+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.pbs.pbsjob for saga.job.Job API with URL scheme(s) ['pbs://', 'pbs+ssh://', 'pbs+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.lsf.lsfjob | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.lsf.lsfjob for saga.job.Service API with URL scheme(s) ['lsf://', 'lsf+ssh://', 'lsf+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.lsf.lsfjob for saga.job.Job API with URL scheme(s) ['lsf://', 'lsf+ssh://', 'lsf+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.irods.irods_replica | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [ERROR ] Skipping adaptor saga.adaptors.irods.irods_replica: failed self test: Could not run iRODS/ils. Check iRODSenvironment and certificates ('module' object has no attribute 'logger') (/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/saga_python-0.17-py2.7.egg/saga/adaptors/irods/irods_replica.py +200 (sanity_check) : "environment and certificates (%s)" % ex)) | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.condor.condorjob | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.condor.condorjob for saga.job.Service API with URL scheme(s) ['condor://', 'condor+ssh://', 'condor+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.condor.condorjob for saga.job.Job API with URL scheme(s) ['condor://', 'condor+ssh://', 'condor+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.slurm.slurm_job | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.slurm.slurm_job for saga.job.Service API with URL scheme(s) ['slurm://', 'slurm+ssh://', 'slurm+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.slurm.slurm_job for saga.job.Job API with URL scheme(s) ['slurm://', 'slurm+ssh://', 'slurm+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.http.http_file | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.http.http_file for saga.namespace.Entry API with URL scheme(s) ['http://', 'https://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.http.http_file for saga.filesystem.File API with URL scheme(s) ['http://', 'https://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.aws.ec2_resource | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.aws.ec2_resource for saga.Context API with URL scheme(s) ['ec2://', 'ec2_keypair://', 'openstack://', 'eucalyptus://', 'euca://', 'aws://', 'amazon://', 'http://', 'https://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.aws.ec2_resource for saga.resource.Manager API with URL scheme(s) ['ec2://', 'ec2_keypair://', 'openstack://', 'eucalyptus://', 'euca://', 'aws://', 'amazon://', 'http://', 'https://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.aws.ec2_resource for saga.resource.Compute API with URL scheme(s) ['ec2://', 'ec2_keypair://', 'openstack://', 'eucalyptus://', 'euca://', 'aws://', 'amazon://', 'http://', 'https://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Loading adaptor saga.adaptors.loadl.loadljob | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.loadl.loadljob for saga.job.Service API with URL scheme(s) ['loadl://', 'loadl+ssh://', 'loadl+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.Engine : [INFO ] Register adaptor saga.adaptors.loadl.loadljob for saga.job.Job API with URL scheme(s) ['loadl://', 'loadl+ssh://', 'loadl+gsissh://'] | |
2014:08:13 12:27:06 Dummy-1 saga.saga.adaptor.ssh : [INFO ] default ssh key at /home/sade/.ssh/id_rsa | |
2014:08:13 12:27:06 Dummy-1 saga.saga.adaptor.ssh : [INFO ] ignore ssh key at /home/sade/.ssh/authorized_keys (no public key: /home/sade/.ssh/authorized_keys.pub) | |
2014:08:13 12:27:07 Dummy-1 saga.saga.adaptor.ssh : [INFO ] default ssh key at /home/sade/.ssh/id_dsa | |
2014:08:13 12:27:07 Dummy-1 saga.saga.adaptor.ssh : [INFO ] default ssh key at /home/sade/.ssh/identity | |
2014:08:13 12:27:07 Dummy-1 saga.saga.adaptor.ssh : [INFO ] ignore ssh key at /home/sade/.ssh/authorized_keys2 (no public key: /home/sade/.ssh/authorized_keys2.pub) | |
2014:08:13 12:27:07 Dummy-1 saga.saga.adaptor.ssh : [INFO ] ignore ssh key at /home/sade/.ssh/known_hosts__ (no public key: /home/sade/.ssh/known_hosts__.pub) | |
2014:08:13 12:27:07 Dummy-1 saga.saga.adaptor.ssh : [INFO ] ignore ssh key at /home/sade/.ssh/known_hosts (no public key: /home/sade/.ssh/known_hosts.pub) | |
2014:08:13 12:27:07 Dummy-1 saga.DefaultSession : [DEBUG ] adding context : {'LifeTime' : '-1', 'Type' : 'ssh', 'UserCert' : '/home/sade/.ssh/id_rsa.pub', 'UserKey' : '/home/sade/.ssh/id_rsa'} | |
2014:08:13 12:27:07 Dummy-1 saga.ContextSSH : [INFO ] init SSH context for key at '/home/sade/.ssh/id_rsa' done | |
2014:08:13 12:27:07 Dummy-1 saga.DefaultSession : [DEBUG ] default context [saga.adaptor.ssh ] : {'LifeTime' : '-1', 'Type' : 'ssh', 'UserCert' : '/home/sade/.ssh/id_rsa.pub', 'UserKey' : '/home/sade/.ssh/id_rsa'} | |
2014:08:13 12:27:07 Dummy-1 saga.DefaultSession : [DEBUG ] adding context : {'LifeTime' : '-1', 'Type' : 'ssh', 'UserCert' : '/home/sade/.ssh/id_dsa.pub', 'UserKey' : '/home/sade/.ssh/id_dsa'} | |
2014:08:13 12:27:07 Dummy-1 saga.ContextSSH : [INFO ] init SSH context for key at '/home/sade/.ssh/id_dsa' done | |
2014:08:13 12:27:07 Dummy-1 saga.DefaultSession : [DEBUG ] default context [saga.adaptor.ssh ] : {'LifeTime' : '-1', 'Type' : 'ssh', 'UserCert' : '/home/sade/.ssh/id_dsa.pub', 'UserKey' : '/home/sade/.ssh/id_dsa'} | |
2014:08:13 12:27:07 Dummy-1 saga.DefaultSession : [DEBUG ] adding context : {'LifeTime' : '-1', 'Type' : 'ssh', 'UserCert' : '/home/sade/.ssh/identity.pub', 'UserKey' : '/home/sade/.ssh/identity'} | |
2014:08:13 12:27:07 Dummy-1 saga.ContextSSH : [INFO ] init SSH context for key at '/home/sade/.ssh/identity' done | |
2014:08:13 12:27:07 Dummy-1 saga.DefaultSession : [DEBUG ] default context [saga.adaptor.ssh ] : {'LifeTime' : '-1', 'Type' : 'ssh', 'UserCert' : '/home/sade/.ssh/identity.pub', 'UserKey' : '/home/sade/.ssh/identity'} | |
2014:08:13 12:27:07 Dummy-1 saga.saga.Session : [DEBUG ] adding context : {'LifeTime' : '-1', 'Type' : 'ssh'} | |
2014:08:13 12:27:07 Dummy-1 saga.PTYShell : [DEBUG ] PTYShell init <saga.utils.pty_shell.PTYShell object at 0x7facfc48a650> | |
2014:08:13 12:27:07 Dummy-1 saga.PTYShell : [INFO ] PTY prompt pattern: [\$#%>\]]\s*$ | |
2014:08:13 12:27:07 Dummy-1 saga.PTYShell : [DEBUG ] open master pty for [ssh] [joe223423] sade: /usr/bin/env TERM=vt100 "/usr/bin/ssh" -t -o IdentityFile=/home/sade/.ssh/id_rsa -o IdentityFile=/home/sade/.ssh/id_dsa -o IdentityFile=/home/sade/.ssh/identity -o ControlMaster=yes -o ControlPath=/tmp/saga_ssh_sade_%h_%p.ctrl joe223423' | |
2014:08:13 12:27:07 Dummy-1 saga.PTYShell : [DEBUG ] PTYProcess init <saga.utils.pty_process.PTYProcess object at 0x7facfc7e4250> | |
2014:08:13 12:27:07 Dummy-1 saga.PTYShell : [INFO ] running: /usr/bin/env TERM=vt100 /usr/bin/ssh -t -o IdentityFile=/home/sade/.ssh/id_rsa -o IdentityFile=/home/sade/.ssh/id_dsa -o IdentityFile=/home/sade/.ssh/identity -o ControlMaster=yes -o ControlPath=/tmp/saga_ssh_sade_%h_%p.ctrl joe223423 | |
2014:08:13 12:27:07 Dummy-1 saga.PTYShell : [DEBUG ] write: [ 10] [ 51] ( export PS1='$' > /dev/null 2>&1 || set prompt='$'\n) | |
127.0.0.1 - - [13/Aug/2014 12:27:07] "POST /job/submit HTTP/1.1" 500 - | |
Traceback (most recent call last): | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/flask/app.py", line 1836, in __call__ | |
return self.wsgi_app(environ, start_response) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/flask/app.py", line 1820, in wsgi_app | |
response = self.make_response(self.handle_exception(e)) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/flask/app.py", line 1403, in handle_exception | |
reraise(exc_type, exc_value, tb) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/flask/app.py", line 1817, in wsgi_app | |
response = self.full_dispatch_request() | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/flask/app.py", line 1477, in full_dispatch_request | |
rv = self.handle_user_exception(e) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/flask/app.py", line 1381, in handle_user_exception | |
reraise(exc_type, exc_value, tb) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/flask/app.py", line 1475, in full_dispatch_request | |
rv = self.dispatch_request() | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/flask/app.py", line 1461, in dispatch_request | |
return self.view_functions[rule.endpoint](**req.view_args) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/flask_login.py", line 758, in decorated_view | |
return func(*args, **kwargs) | |
File "/W5/sade/workspace/simple-queue-manager/sqmpy/job/views.py", line 110, in submit | |
description=form.description.data) | |
File "/W5/sade/workspace/simple-queue-manager/sqmpy/job/services.py", line 37, in submit_job | |
**kwargs) | |
File "/W5/sade/workspace/simple-queue-manager/sqmpy/job/manager.py", line 85, in submit_job | |
saga_wrapper = SagaJobWrapper(job) | |
File "/W5/sade/workspace/simple-queue-manager/sqmpy/job/saga_helper.py", line 65, in __init__ | |
session=self._session) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/saga_python-0.17-py2.7.egg/saga/job/service.py", line 109, in __init__ | |
url, session, ttype=_ttype) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/saga_python-0.17-py2.7.egg/saga/base.py", line 99, in __init__ | |
self._init_task = self._adaptor.init_instance (adaptor_state, *args, **kwargs) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/saga_python-0.17-py2.7.egg/saga/adaptors/cpi/decorators.py", line 51, in wrap_function | |
return sync_function (self, *args, **kwargs) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/saga_python-0.17-py2.7.egg/saga/adaptors/sge/sgejob.py", line 316, in init_instance | |
self.shell = saga.utils.pty_shell.PTYShell(pty_url, self.session) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/saga_python-0.17-py2.7.egg/saga/utils/pty_shell.py", line 224, in __init__ | |
self.pty_info = self.factory.initialize (self.url, self.session, self.prompt, self.logger) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/saga_python-0.17-py2.7.egg/saga/utils/pty_shell_factory.py", line 183, in initialize | |
self._initialize_pty (info['pty'], info, is_shell=True) | |
File "/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/saga_python-0.17-py2.7.egg/saga/utils/pty_shell_factory.py", line 386, in _initialize_pty | |
raise ptye.translate_exception (e) | |
NoSuccess: process I/O failed: (/W5/sade/workspace/sqmpy-env/lib/python2.7/site-packages/saga_python-0.17-py2.7.egg/saga/utils/pty_process.py +512 (read) : raise se.NoSuccess ("process I/O failed: %s" % self.tail)) |
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