Merge pull request MRtrix3#986 from MRtrix3/doctest

docs update

docs/reference/commands/5tt2gmwmi.rst

@@ -55,9 +55,14 @@ Smith, R. E.; Tournier, J.-D.; Calamante, F. & Connelly, A. Anatomically-constra
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/5tt2vis.rst

@@ -60,9 +60,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/5ttcheck.rst

@@ -49,9 +49,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/5ttedit.rst

@@ -60,9 +60,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/afdconnectivity.rst

@@ -67,9 +67,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/amp2response.rst

@@ -70,9 +70,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/amp2sh.rst

@@ -84,9 +84,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/connectome2tck.rst

@@ -76,9 +76,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/connectomestats.rst

@@ -89,9 +89,14 @@ References
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dcmedit.rst

@@ -60,9 +60,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dcminfo.rst

@@ -53,9 +53,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dirflip.rst

@@ -57,9 +57,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dirgen.rst

@@ -63,9 +63,14 @@ Papadakis, N. G.; Murrills, C. D.; Hall, L. D.; Huang, C. L.-H. & Adrian Carpent
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dirmerge.rst

@@ -49,9 +49,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dirorder.rst

@@ -50,9 +50,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dirsplit.rst

@@ -52,9 +52,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dirstat.rst

@@ -47,9 +47,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dwi2adc.rst

@@ -57,9 +57,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dwi2fod.rst

@@ -104,9 +104,14 @@ Tournier, J.-D.; Calamante, F., Gadian, D.G. & Connelly, A. Direct estimation of
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dwi2mask.rst

@@ -69,9 +69,14 @@ Dhollander T, Raffelt D, Connelly A. Unsupervised 3-tissue response function est
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dwi2noise.rst

@@ -69,9 +69,14 @@ Standard options
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+

docs/reference/commands/dwi2tensor.rst

@@ -77,9 +77,14 @@ Veraart, J.; Sijbers, J.; Sunaert, S.; Leemans, A. & Jeurissen, B. Weighted line
 
 **Copyright:** Copyright (c) 2008-2017 the MRtrix3 contributors
 
-This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.
+This Source Code Form is subject to the terms of the Mozilla Public
+License, v. 2.0. If a copy of the MPL was not distributed with this
+file, you can obtain one at http://mozilla.org/MPL/2.0/.
 
-MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+MRtrix is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty
+of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
 
 For more details, see http://www.mrtrix.org/.
 
+