Fix FUGUE bug

[tsalo]

Closes #752.

Changes proposed in this pull request

• Add test using multi-shell DWI data with a GRE field map, using data from https://openneuro.org/datasets/ds005299/versions/1.0.0.
• Add single-shell + GRE test, using data from https://openneuro.org/datasets/ds000113/versions/1.3.0.
• Copy over FUGUEvsm2ANTSwarp interface from old version of QSIPrep.
  • We'll probably want to replace the overall workflow with SDCFlows at some point.

NOTE: I had to downsample the anatomical scans from both datasets to 2 mm3 and set the resource class to xlarge to get SynthSeg to run without getting killed.

[tsalo]

Both new tests succeed, but neither produces any outputs. @mattcieslak any clue what's wrong?

EDIT: It was because I included --boilerplate in the commands.

[codecov-commenter]

Codecov Report

Attention: Patch coverage is 17.02128% with 78 lines in your changes missing coverage. Please review.

Project coverage is 29.83%. Comparing base (65791db) to head (ea86bf8).
Report is 1 commits behind head on master.

Files	Patch %	Lines
qsiprep/interfaces/niworkflows.py	16.30%	77 Missing ⚠️
qsiprep/workflows/fieldmap/unwarp.py	50.00%	1 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##           master     #769      +/-   ##
==========================================
+ Coverage   29.77%   29.83%   +0.06%     
==========================================
  Files          97       97              
  Lines       14583    14674      +91     
  Branches     1886     1899      +13     
==========================================
+ Hits         4342     4378      +36     
- Misses      10115    10168      +53     
- Partials      126      128       +2     

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

[tsalo]

@mattcieslak it's working! Can you review when you have some time?