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Temporary directories linger after successful heudiconv run #462
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@mgxd thanks for opening this, looking forward to the patch 👍 |
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yarikoptic
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Various improvements and compatibility/support (dcm2niix, datalad, duecredit) changes. Major change is placement of output files to the target output directory during conversion. - #454 zenodo referencing in README.rst and support for ducredit for heudiconv and reproin heuristic - #445 more tutorial references in README.md - [#485][] placed files during conversion right away into the target directory (with a `_heudiconv???` suffix, renamed into ultimate target name later on), which avoids hitting file size limits of /tmp ([#481][]) and helped to avoid a regression in dcm2nixx 1.0.20201102 - #477 replaced `rec-<magnitude|phase>` with `part-<mag|phase>` now that BIDS supports the part entity - #473 made default for CogAtlasID to be a TODO URL - #459 made AcquisitionTime used for acq_time scans file field - #451 retained sub-second resolution in scans files - #442 refactored code so there is now heudiconv.main.workflow for more convenient use as a Python module - minimal version of nipype set to 1.2.3 to guarantee correct handling of DWI files ([#480][]) - `heudiconvDCM*` temporary directories are removed now ([#462][]) - compatibility with DataLad 0.13 ([#464][]) - #443 pathlib as a dependency (we are Python3 only now) * tag 'v0.9.0': Add a helper rule to upload to pypi update changelog reference as part of prep release [DATALAD RUNCMD] prepare the release CHANGELOG entry for 0.9.0
yarikoptic
added a commit
that referenced
this issue
Dec 23, 2020
Various improvements and compatibility/support (dcm2niix, datalad, duecredit) changes. Major change is placement of output files to the target output directory during conversion. - #454 zenodo referencing in README.rst and support for ducredit for heudiconv and reproin heuristic - #445 more tutorial references in README.md - [#485][] placed files during conversion right away into the target directory (with a `_heudiconv???` suffix, renamed into ultimate target name later on), which avoids hitting file size limits of /tmp ([#481][]) and helped to avoid a regression in dcm2nixx 1.0.20201102 - #477 replaced `rec-<magnitude|phase>` with `part-<mag|phase>` now that BIDS supports the part entity - #473 made default for CogAtlasID to be a TODO URL - #459 made AcquisitionTime used for acq_time scans file field - #451 retained sub-second resolution in scans files - #442 refactored code so there is now heudiconv.main.workflow for more convenient use as a Python module - minimal version of nipype set to 1.2.3 to guarantee correct handling of DWI files ([#480][]) - `heudiconvDCM*` temporary directories are removed now ([#462][]) - compatibility with DataLad 0.13 ([#464][]) - #443 pathlib as a dependency (we are Python3 only now) * tag 'v0.9.0': Do no bother ensuring that version changed - should be no changes
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Originally brought up in https://neurostars.org/t/heudiconv-v0-8-0-fails-to-remove-tmp-directories/15388
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