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FAQ - Frequently Asked Questions
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[CRITICAL] Unhandled exception on Autosubmit: [Errno 11] Resource temporarily unavailable
====================

.. code-block:: python

    [CRITICAL] Unhandled exception on Autosubmit: [Errno 11] Resource temporarily unavailable
    Traceback (most recent call last):
    File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/autosubmit.py", line 402, in parse_args
    args.group_by, args.expand, args.expand_status)
    File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/autosubmit.py", line 2093, in set_status
    with portalocker.Lock(os.path.join(tmp_path, 'autosubmit.lock'), timeout=1):
    File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/portalocker-1.2.0-py2.7.egg/portalocker/utils.py", line 195, in __enter__
    return self.acquire()
    File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/portalocker-1.2.0-py2.7.egg/portalocker/utils.py", line 155, in acquire
    raise exceptions.LockException(exception)
    LockException: [Errno 11] R

.. code-block:: ini

    [WARNING] We have detected that there is another Autosubmit instance using the experiment a3av.
    [WARNING] We have stopped this execution in order to prevent incoherency errors.
    [WARNING] Stop other Autosubmit instances that are using the experiment a3av and try it again.

Solution
---------------
Make sure the experiment is not still running. If it's not, delete the autosubmit.lock in the /tmp folder inside your experiment directory.

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[CRITICAL] Unhandled exception on Autosubmit: attempt to write a readonly database
====================

.. code-block:: python

    [CRITICAL] Unhandled exception on Autosubmit: attempt to write a readonly database
    Traceback (most recent call last):
     File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/autosubmit
    .py", line 389, in parse_args
       return Autosubmit.create(args.expid, args.noplot, args.hide, args.output, args.group_by, args.expand, args.expand_status)
     File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/autosubmit
    .py", line 1953, in create
       "job_packages_" + expid).reset_table()
     File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/job/job_pa
    ckage_persistence.py", line 65, in reset_table
       self.db_manager.drop_table(self.JOB_PACKAGES_TABLE)
     File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/database/d
    b_manager.py", line 65, in drop_table
       cursor.execute(drop_command)
    OperationalError: attempt to write a readonly database

Solution
---------------
This usually happens when trying to run `autosubmit create` with an expid of another user, please double check the expid you are using.

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[ERROR] Command sbatch -D ... failed with error message: sbatch: error: Batch job submission failed: Invalid account or account/partition combination specified or [CRITICAL] Unhandled exception on Autosubmit: 'bool' object has no attribute 'startswith' 
====================

.. code-block:: python

  [ERROR] nord3 submission failed
  [CRITICAL] Unhandled exception on Autosubmit: 'bool' object has no attribute 'startswith'
  Traceback (most recent call last):
    File "/shared/earth/software/autosubmit/3.12.0-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.12.0-py2.7.egg/autosubmit/autosubmit.py", line 416, in parse_args
      return Autosubmit.run_experiment(args.expid, args.notransitive)
    File "/shared/earth/software/autosubmit/3.12.0-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.12.0-py2.7.egg/autosubmit/autosubmit.py", line 1076, in run_experiment
      if Autosubmit.submit_ready_jobs(as_conf, job_list, platforms_to_test, packages_persistence):
    File "/shared/earth/software/autosubmit/3.12.0-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.12.0-py2.7.egg/autosubmit/autosubmit.py", line 1132, in submit_ready_jobs
      package.submit(as_conf, job_list.parameters,inspect)
    File "/shared/earth/software/autosubmit/3.12.0-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.12.0-py2.7.egg/autosubmit/job/job_packages.py", line 96, in submit
      self._send_files()
    File "/shared/earth/software/autosubmit/3.12.0-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.12.0-py2.7.egg/autosubmit/job/job_packages.py", line 129, in _send_files
      self.platform.send_file(self._job_scripts[job.name])
    File "/shared/earth/software/autosubmit/3.12.0-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.12.0-py2.7.egg/autosubmit/platforms/paramiko_platform.py", line 126, in send_file
      self.delete_file(filename)
    File "/shared/earth/software/autosubmit/3.12.0-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.12.0-py2.7.egg/autosubmit/platforms/paramiko_platform.py", line 200, in delete_file
      Log.debug('Could not remove file {0}'.format(os.path.join(self.get_files_path(), filename)))
    File "/shared/earth/software/Python/2.7.9-foss-2015a/lib/python2.7/posixpath.py", line 75, in join
      if b.startswith('/'):
  AttributeError: 'bool' object has no attribute 'startswith'

Solution
---------------
This can be due to an invalid configuration in your ~/.ssh/config file, so check if you are able to run a ssh command using the account displayed in the error message.
Alternately, this can also happen if you have some issue on your jobs or platform experiment configuration, please check FILE, QUEUE , WALLCLOCK values of the jobs_conf and doble check that your proj file contains the appropiate templates and files. 


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[ERROR] Cannot send file to remote platform
===================================

.. code-block:: python

    [ERROR] marenostrum4 submission failed
    [CRITICAL] Unhandled exception on Autosubmit: size mismatch in put!  0 != 38998
    Traceback (most recent call last):
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/autosubmit.py", line 368, in parse_args
        return Autosubmit.run_experiment(args.expid)
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/autosubmit.py", line 776, in run_experiment
        if Autosubmit.submit_ready_jobs(as_conf, job_list, platforms_to_test, packages_persistence):
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/autosubmit.py", line 819, in submit_ready_jobs
        package.submit(as_conf, job_list.parameters)
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/job/job_packages.py", line 87, in submit
        self._send_files()
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/job/job_packages.py", line 115, in _send_files
        self.platform.send_file(self._job_scripts[job.name])
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/platforms/paramiko_platform.py", line 129, in send_file
        ftp.put(os.path.join(self.tmp_path, filename), os.path.join(self.get_files_path(), filename))
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/paramiko-1.15.0-py2.7.egg/paramiko/sftp_client.py", line 669, in put
        return self.putfo(fl, remotepath, file_size, callback, confirm)
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/paramiko-1.15.0-py2.7.egg/paramiko/sftp_client.py", line 635, in putfo
        raise IOError('size mismatch in put!  %d != %d' % (s.st_size, size))
     IOError: size mismatch in put!  0 != 38998

This happens when the quota has been reached and the machine is full

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[CRITICAL] Unhandled exception on Autosubmit: database is locked
===================================

.. code-block:: python

    [CRITICAL] Unhandled exception on Autosubmit: database is locked
    Traceback (most recent call last):
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/autosubmit.py", line 377, in parse_args
        args.operational) != ''
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/autosubmit.py", line 532, in expid
        exp_id = copy_experiment(copy_id, description, Autosubmit.autosubmit_version, test, operational)
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/experiment/experiment_common.py", line 93, in copy_experiment
        new_name = new_experiment(description, version, test, operational)
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/experiment/experiment_common.py", line 68, in new_experiment
        if not db_common.save_experiment(new_name, description, version):
      File "/shared/earth/software/autosubmit/3.11.0b-foss-2015a-Python-2.7.9/lib/python2.7/site-packages/autosubmit-3.10.0-py2.7.egg/autosubmit/database/db_common.py", line 151, in save_experiment
        {'name': name, 'description': description, 'version': version})
    OperationalError: database is locked

Solution
---------------
If you were trying to copy an experiment, make sure you put the -y immediately after expid: `autosubmit expid -y`

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bash: sbatch: command not found
===================================

Solution
---------------
First, check your jobs_expid.conf and platforms_expid.conf files and make sure the platform assigned to the running job is defined correctly and is a SLURM platform.
If this is ok, check that the hostname of the platform you are using is also correctly defined in your ~/.ssh/config file.
