Mercurial > repos > shellac > guppy_basecaller
diff env/lib/python3.7/site-packages/boto/pyami/scriptbase.py @ 0:26e78fe6e8c4 draft
"planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
| author | shellac |
|---|---|
| date | Sat, 02 May 2020 07:14:21 -0400 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/env/lib/python3.7/site-packages/boto/pyami/scriptbase.py Sat May 02 07:14:21 2020 -0400 @@ -0,0 +1,43 @@ +import os +import sys +from boto.utils import ShellCommand, get_ts +import boto +import boto.utils + +class ScriptBase(object): + + def __init__(self, config_file=None): + self.instance_id = boto.config.get('Instance', 'instance-id', 'default') + self.name = self.__class__.__name__ + self.ts = get_ts() + if config_file: + boto.config.read(config_file) + + def notify(self, subject, body=''): + boto.utils.notify(subject, body) + + def mkdir(self, path): + if not os.path.isdir(path): + try: + os.mkdir(path) + except: + boto.log.error('Error creating directory: %s' % path) + + def umount(self, path): + if os.path.ismount(path): + self.run('umount %s' % path) + + def run(self, command, notify=True, exit_on_error=False, cwd=None): + self.last_command = ShellCommand(command, cwd=cwd) + if self.last_command.status != 0: + boto.log.error('Error running command: "%s". Output: "%s"' % (command, self.last_command.output)) + if notify: + self.notify('Error encountered', + 'Error running the following command:\n\t%s\n\nCommand output:\n\t%s' % \ + (command, self.last_command.output)) + if exit_on_error: + sys.exit(-1) + return self.last_command.status + + def main(self): + pass
