[ENH] integrates anat and func QA as part of bidsSpatialPrepro

[Remi-Gau]

• in many places spm_up that is used for anat and func QA requires SPM like filenames (for example with prefixes)
• this makes it difficult to run anat and func QA after files have been renamd to be BIDS derivatives compatible
• so a solution is to run them after preprocessing but before renaming

Long term solution would be to refactor spm_up to make it more flexible in terms of inputs, but this would take a long time.

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left to do: reslice tissue probability maps to BOLD resolution during preprocessing to allow running all steps of functional QA.

[codecov]

Codecov Report

Merging #466 (1b9c8c7) into dev (8bdbd26) will decrease coverage by 0.58%.
The diff coverage is 25.83%.

❗ Current head 1b9c8c7 differs from pull request most recent head 04a8808. Consider uploading reports for the commit 04a8808 to get more accurate results

@@            Coverage Diff             @@
##              dev     #466      +/-   ##
==========================================
- Coverage   72.67%   72.09%   -0.59%     
==========================================
  Files         173      175       +2     
  Lines        3444     3505      +61     
==========================================
+ Hits         2503     2527      +24     
- Misses        941      978      +37     

Flag	Coverage Δ
unittests	72.09% <25.83%> (-0.59%)	⬇️

Flags with carried forward coverage won't be shown. Click here to find out more.

Impacted Files	Coverage Δ
src/QA/anatomicalQA.m	0.00% <0.00%> (ø)
src/QA/computeDesignEfficiency.m	54.68% <ø> (ø)
src/QA/functionalQA.m	0.00% <0.00%> (ø)
src/QA/plotEvents.m	45.45% <ø> (ø)
src/batches/preproc/setBatchCoregistrationFmap.m	100.00% <ø> (ø)
src/batches/preproc/setBatchCreateVDMs.m	95.12% <ø> (ø)
src/batches/preproc/setBatchRealign.m	80.00% <ø> (ø)
src/batches/setBatchMeanAnatAndMask.m	100.00% <ø> (ø)
src/fieldmaps/getMetadataFromIntendedForFunc.m	85.71% <ø> (ø)
src/fieldmaps/getTotalReadoutTime.m	75.00% <ø> (ø)
... and 22 more

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