Bug: OmeroCli prints out "I/O operation on closed file"

[jamoore]

jboss@nightshade ~/OMERO-CURRENT $ bin/omero group list
Previously logged in to localhost as cxallan
Server: [localhost]
Username: [jboss]root
Password:
Created session a66538a2-bd7c-411c-a96d-8fd2c04897de (root@localhost). Idle timeout: 10.0 min. Current group: system
 id  | name               | perms  | # of owners | # of members 
-----+--------------------+--------+-------------+--------------
 0   | system             | rw---- | 1           | 1            
 1   | user               | rw---- | 2           | 105          
 2   | default            | rw---- | 0           | 63           
 3   | Swedlow Lab        | rwr--- | 2           | 8            
 4   | Swedlow Lab OMERO  | rwr--- | 0           | 5            
 5   | Nathke lab         | rw---- | 0           | 7            
 6   | Usable Image       | rw---- | 0           | 7            
 7   | Gartner Lab        | rw---- | 0           | 2            
 8   | Perkins lab        | rw---- | 0           | 2            
 9   | Tanaka Lab         | rw---- | 0           | 2            
 10  | Blow lab           | rw---- | 0           | 2            
 11  | Lamond lab         | rw---- | 0           | 8            
 12  | Hardie lab         | rw---- | 0           | 2            
 13  | guest              | rw---- | 0           | 1            
 700 | Storey lab         | rw---- | 0           | 2            
 701 | Hay lab            | rw---- | 0           | 2            
 750 | Melpi Lab          | rw---- | 0           | 1            
 751 | DEMO               | rw---- | 0           | 2            
 801 | fourtwo            | rw---- | 0           | 1            
 852 | NSW Lab            | rwrw-- | 1           | 8            
 902 | Former Swedlow Lab | rw---- | 0           | 4            
(21 rows)
Traceback (most recent call last):
  File "/usr/lib/python2.4/logging/__init__.py", line 737, in emit
    self.stream.write(fs % msg)
ValueError: I/O operation on closed file

[jmoore]

Possible related: ​http://bugs.python.org/issue6333

[jmoore]

Hacking a "print record" here:

    def emit(self, record):
        """
        Emit a record.

        If a formatter is specified, it is used to format the record.
        The record is then written to the stream with a trailing newline
        [N.B. this may be removed depending on feedback]. If exception
        information is present, it is formatted using
        traceback.print_exception and appended to the stream.
        """
        try:
            msg = self.format(record)
            fs = "%s\n"
            if not hasattr(types, "UnicodeType"): #if no unicode support...
                self.stream.write(fs % msg)
            else:
                try:
                    self.stream.write(fs % msg)
                except UnicodeError:
                    self.stream.write(fs % msg.encode("UTF-8"))
            self.flush()
        except (KeyboardInterrupt, SystemExit):
            raise
        except:
            print record
            self.handleError(record)

I found that the message being printed was:

<LogRecord: omero.util.Resources, 20, /home/jboss/OMERO.server-4.2.1-DEV-r8558-trunk-b1236/lib/python/omero/util/__init__.py, 533, "Halted">

[jmoore]

(In [8579]) Added AtExitEvent to prevent logging on atexit (Fix #3260)

[jmoore <josh@…>]

(In [20d1ce9cb37b929e33bb410d47871e9493a36e8e/ome.git] on branch dev_4_1_custom) Added AtExitEvent to prevent logging on atexit (Fix #3260)

git-svn-id: ​file:///home/svn/omero/trunk@8579 05709c45-44f0-0310-885b-81a1db45b4a6

NB: Had to remove references in omero/cli.py and processor.py