Merge tag '1.0.6'

1.0.6 (April 15, 2020)

Bug-fix release.

* FIX: Do not reorient magnitude images (#98)

Author: effigies

CHANGES.rst

@@ -1,9 +1,15 @@
+1.0.6 (April 15, 2020)
+======================
+Bug-fix release.
+
+* FIX: Do not reorient magnitude images (#98)
+
 1.2.1 (April 01, 2020)
 ======================
 A patch release to make *SDCFlows* more amicable to downstream software.
 
-  * MAINT: Migrate from versioneer to setuptools_scm (#97)
-  * MAINT: Flexibilize dependencies -- nipype, niworkflows, pybids (#95)
+* MAINT: Migrate from versioneer to setuptools_scm (#97)
+* MAINT: Flexibilize dependencies -- nipype, niworkflows, pybids (#95)
 
 1.2.0 (February 15, 2020)
 =========================

docs/requirements.txt

@@ -8,7 +8,7 @@ packaging
 pydot>=1.2.3
 pydotplus
 sphinx-argparse
-sphinx>=2.1.2
+sphinx>=2.1.2,<3
 sphinx_rtd_theme
 sphinxcontrib-apidoc ~= 0.3.0
-templateflow
+templateflow

sdcflows/workflows/gre.py

@@ -65,7 +65,8 @@ def init_magnitude_wf(omp_nthreads, name='magnitude_wf'):
         name='outputnode')
 
     # Merge input magnitude images
-    magmrg = pe.Node(IntraModalMerge(hmc=False), name='magmrg')
+    # Do not reorient to RAS to preserve the validity of PhaseEncodingDirection
+    magmrg = pe.Node(IntraModalMerge(hmc=False, to_ras=False), name='magmrg')
 
     # de-gradient the fields ("bias/illumination artifact")
     n4_correct = pe.Node(ants.N4BiasFieldCorrection(dimension=3, copy_header=True),

setup.cfg

@@ -45,7 +45,7 @@ include_package_data = True
 
 [options.extras_require]
 doc =
-    sphinx >= 2.1.2
+    sphinx >= 2.1.2, <3
     pydot >= 1.2.3
     pydotplus
     sphinx_rtd_theme