Cleanup setup script.
Silence errors related to `stop` and `stopnow`.

`stop` and `stopnow` are client scripts, not deployment scripts. This
was changed at some point before this code was committed to git.
Unfortunately, the `package script` was not updated and, as a result, it
generates error messages while running.

This patch removes these files from the section of the `package` script
where the deployment package is built.
Merge branch 'cleanup-packaging-script' into dev
Fix redirection bug.

Had ampersand on wrong side of redirection operator.
Merge branch 'cleanup-packaging-script' into dev
Fix `start`ing of jobs on a remote management node.

Workfiles submitted to a remote management node were initially copied
with a `.tmp` suffix and then the `.tmp` suffix is removed. However,
`workfilehandler.py` does not ignore files with the `.tmp` suffix; it
treats them as a new job and starts processing them immediately. Thus,
once the file is renamed, the management node will detect it as a new
work file and start processing it again. This results in (at least
partial) duplication of submitted workfiles.

Since `workfilehandler.py` ignores hidden files (i.e., files with a
leading `.` in their name), this patch changes job submission to
initially submit workfiles as hidden files and then renames them without
the leading `.`.
Fix downloaded file-name of `pyMPI` in `setup-python2.6`.

When URLs do not end with the name of the file being downloaded, some
versions of `wget` will improperly name the downloaded file. To avoid
this for the `pyMPI` download, use the `-O` option of wget to manually
specify the file name.
Ignore workfiles submitted with a `.tmp` suffix.
Make shell redirection more portable.

All of the system commands use `&>` for redirection. This is a
BASH-sepecific alias for "redirect everything" and is not portable to
all shells.

This patch changes all of these commands to use `> file 2>&1` which is a
the portable alternative.
Allow custom ordering of user modules.
Merge branch 'client-script-fixes' into dev
Merge branch 'misc' into dev