run.command(): Move temporary file directory #1405
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Was already suggested in #1033. I don't know why we didn't follow up with it, it's a trivial addition, and makes sense.
I don't like the idea much, but I have to concede that this is likely to be the most sensible default for now... |
Lestropie
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Jul 21, 2018
- New environment variable MRTRIX_TMPFILE_DIR, which has precedence over the MRtrix config file in setting the location of the temporary directory used for piped images. If this is not set, environment variable TMPDIR will also be tested and used if set. - In Python scripts, use environment variable MRTRIX_TMPFILE_DIR to instruct any invoked MRtrix commands to place piped images within the temporary directory created by the Python library, rather than the default location. Closes #1033. Closes #1405.
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Proposed solution for issue reported on forum.
Allow the temporary file directory
MR::File::tmpfile_dir()to be set via an environment variable.Within the
mrtrix3.runmodule, set this environment variable to be the temporary directory created for the script:app.tempDir.Piped images generated during
run.command()calls will be created in the script's temporary directory rather than e.g./tmp/, and will additionally be deleted as soon as the piped command is completed.The text was updated successfully, but these errors were encountered: