{"action":"closed","issue":{"url":"https://api.github.com/repos/mantidproject/mantid/issues/17208","repository_url":"https://api.github.com/repos/mantidproject/mantid","labels_url":"https://api.github.com/repos/mantidproject/mantid/issues/17208/labels{/name}","comments_url":"https://api.github.com/repos/mantidproject/mantid/issues/17208/comments","events_url":"https://api.github.com/repos/mantidproject/mantid/issues/17208/events","html_url":"https://github.com/mantidproject/mantid/issues/17208","id":170823606,"number":17208,"title":"IMAT reconstruction scripts: move output slices to a subdirectory 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3.8","description":"","creator":{"login":"granrothge","id":5910574,"avatar_url":"https://avatars.githubusercontent.com/u/5910574?v=3","gravatar_id":"","url":"https://api.github.com/users/granrothge","html_url":"https://github.com/granrothge","followers_url":"https://api.github.com/users/granrothge/followers","following_url":"https://api.github.com/users/granrothge/following{/other_user}","gists_url":"https://api.github.com/users/granrothge/gists{/gist_id}","starred_url":"https://api.github.com/users/granrothge/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/granrothge/subscriptions","organizations_url":"https://api.github.com/users/granrothge/orgs","repos_url":"https://api.github.com/users/granrothge/repos","events_url":"https://api.github.com/users/granrothge/events{/privacy}","received_events_url":"https://api.github.com/users/granrothge/received_events","type":"User","site_admin":false},"open_issues":716,"closed_issues":646,"state":"open","created_at":"2016-01-13T20:00:53Z","updated_at":"2016-08-22T07:35:30Z","due_on":"2016-10-09T23:00:00Z","closed_at":null},"comments":0,"created_at":"2016-08-12T08:34:44Z","updated_at":"2016-08-22T07:35:29Z","closed_at":"2016-08-22T07:35:29Z","body":"The reconstructed volume slices (potentially many hundreds) are currently produced in the main subdirectory of the results, next to the \"log\" text file, NetCDF \".nc\" file and other files and subdirectories. This is inconvenient. A better approach would be to put them all inside a subdirectory (similar as the pre-processed slices are produced inside `pre_processed`).\r\n\r\nThe slices of the reconstructed 3D volume (or reconstructed slices) are saved [here in the code](https://github.com/mantidproject/mantid/blob/master/scripts/Imaging/IMAT/tomorec/reconstruction_command.py#L110). \r\n\r\nNote that for example [this block](https://github.com/mantidproject/mantid/blob/master/scripts/Imaging/IMAT/tomorec/reconstruction_command.py#L882-L889) (disabled at the moment) does something similar for the horizontal cut slices (it just comes down to a `os.path.join()`.\r\n\r\nTesting this  for development and validation requires an account on SCARF (or alternatively, running the scripts locally, for example with a local installation of TomoPy on a linux machine).\r\n"}}
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