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docs/source/usage.rst

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@@ -102,16 +102,8 @@ This will separate *DataLad* management from *MRIQC*'s operation,
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which can be an effective way of debugging issues and averting
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erroneous conditions.
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Command line interface
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----------------------
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.. argparse::
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:ref: mriqc.cli.parser._build_parser
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:prog: mriqc
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:nodefault:
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:nodefaultconst:
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Running mriqc on HPC clusters
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-----------------------------
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Running *MRIQC* on HPC with *Singularity*/*Apptainer*
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-----------------------------------------------------
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We have profiled cores and memory usages with the *resource profiler*
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tool of *Nipype*.
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templateflow.api.TF_S3_ROOT = 'http://templateflow.s3.amazonaws.com'
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templateflow.api.get('MNI152NLin2009cAsym') # change template if needed
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then provide the templates to the container by mounting the ``templateflow`` home directory and setting the ``TEMPLATEFLOW_HOME`` environment variable:
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.. code-block:: bash
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apptainer run --net --network none -v /path/to/templateflow:/path/to/templates --env TEMPLATEFLOW_HOME=/path/to/templates ...
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Command line interface
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----------------------
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.. argparse::
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:ref: mriqc.cli.parser._build_parser
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:prog: mriqc
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:nodefault:
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:nodefaultconst:
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.. topic:: References
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.. [BIDS] `Brain Imaging Data Structure <http://bids.neuroimaging.io/>`_

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