Hi Ricardo
as those wrapper_script.sh files sit on the science cloud instances, they
disappear when the application terminate.
I added a copy command to the terminated() method of QDF2PlinkApp.py:
newout = os.path.join(self.final_dir, "wrapper_script.sh")
move("./.gc3pie_shellcmd/wrapper_script.sh", newout)
But this doesn't work according to the output:
gc3.gc3libs: ERROR: Ignored error in fetching output of task
'QDF2PlinkApp.3411': IOError: [Errno 2] No such file or directory:
'./.gc3pie_shellcmd/wrapper_script.sh'
gc3.gc3libs: DEBUG: (Original traceback follows.)
Traceback (most recent call last):
File "/home/centos/gc3pie/lib/python2.7/site-packages/gc3libs/core.py",
line 1594, in progress
changed_only=self.retrieve_changed_only)
File "/home/centos/gc3pie/lib/python2.7/site-packages/gc3libs/core.py",
line 592, in fetch_output
app, download_dir, overwrite, changed_only, **extra_args)
File "/home/centos/gc3pie/lib/python2.7/site-packages/gc3libs/core.py",
line 671, in __fetch_output_application
return Task.fetch_output(app, download_dir)
File "/home/centos/gc3pie/lib/python2.7/site-packages/gc3libs/__init__.py"
, line 424, in fetch_output
self.execution.state = Run.State.TERMINATED
File "/home/centos/gc3pie/lib/python2.7/site-packages/gc3libs/__init__.py"
, line 1812, in fset
getattr(self._ref, handler)()
File "/home/centos/analysis/QDF2PlinkApp.py", line 59, in terminated
move("./.gc3pie_shellcmd/wrapper_script.sh", newout)
File "/usr/lib64/python2.7/shutil.py", line 301, in move
copy2(src, real_dst)
File "/usr/lib64/python2.7/shutil.py", line 130, in copy2
copyfile(src, dst)
File "/usr/lib64/python2.7/shutil.py", line 82, in copyfile
with open(src, 'rb') as fsrc:
IOError: [Errno 2] No such file or directory:
'./.gc3pie_shellcmd/wrapper_script.sh'
I don't know if the path is correct, ot if the instance is still alive,
once the method terminate() is executed....
Is there a way to keep an instance alive after its application has finished?
Regards
Jody
On Monday, November 21, 2016 at 11:51:42 AM UTC+1, Jody Weissmann wrote:
>
> Hi
>
> I have built a *SequentialTaskCollection* consisting of 6 Applications.
>
> When i run it on localhost it works fine, but on the science cloud i get a
> message like
> /home/centos/gc3libs.L4Kvjx/.gc3pie_shellcmd/wrapper_script.sh: line 4:
> exec: None: not found
> for every application in the *SequentialTaskCollection*
>
> A new instance is started in the science cloud and the various output
> directories as well as stdout and stderr files are created.
>
> The instance created is a fresh Centos 7.2 installationto which i added
> some packages needed for my software to run (i.e. no gc3lib or so
> installed).
>
> Does anybody know how to solve this problem?
>
> cheers
> Jody
>
>
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