Merge pull request #759 from yarikoptic/bf-docs

Replace one rogue markdown [ref](url) to `ref <url>`_ RST

Author: yarikoptic

docs/reproin.rst

@@ -1,5 +1,5 @@
 ================
-Reproin 
+Reproin
 ================
 
 This tutorial is based on `Dianne Patterson's University of Arizona tutorials <https://neuroimaging-core-docs.readthedocs.io/en/latest/pages/heudiconv.html#lesson-3-reproin-py>`_
@@ -10,14 +10,14 @@ MR scanners.
 
 If you can control how your image sequences are named at the scanner, you can use the *reproin* naming convention.
 If you cannot control such naming, or already have collected data, you can provide your custom heuristic mapping into *reproin* and thus in effect use reproin heuristic.
-That will be a topic for another tutorial but meanwhile you can checkout `reproin/issues/18 <https://github.com/ReproNim/reproin/issues/18#issuecomment-834598084>`_ for a brief HOWTO. 
+That will be a topic for another tutorial but meanwhile you can checkout `reproin/issues/18 <https://github.com/ReproNim/reproin/issues/18#issuecomment-834598084>`_ for a brief HOWTO.
 
 Get Example Dataset
 -------------------
 
 This example uses a phantom dataset: `reproin_dicom.zip <https://datasets.datalad.org/?dir=/repronim/heudiconv-reproin-example>`_ generated by the University of Arizona on their Siemens Skyra 3T with Syngo MR VE11c software on 2018_02_08.
 
-The ``REPROIN`` directory is a simple reproin-compliant DICOM (.dcm) dataset without sessions. 
+The ``REPROIN`` directory is a simple reproin-compliant DICOM (.dcm) dataset without sessions.
 (Derived dwi images (ADC, FA etc.) that the scanner produced have been removed.::
 
     [user@local ~/reproin_dicom/REPROIN]$ tree -I "*.dcm"
@@ -82,7 +82,7 @@ If not, ReproIn heuristic bases it on the value of the DICOM "Study Description"
 Reproin Scanner File Names
 ****************************
 
-* For both BIDS and *reproin*, names are composed of an ordered series of key-value pairs, called [*entities*](https://github.com/bids-standard/bids-specification/blob/master/src/schema/objects/entities.yaml).
+* For both BIDS and *reproin*, names are composed of an ordered series of key-value pairs, called `*entities* <https://github.com/bids-standard/bids-specification/blob/master/src/schema/objects/entities.yaml>`_.
    Each key and its value are joined with a dash ``-`` (e.g., ``acq-MPRAGE``, ``dir-AP``).
    These key-value pairs are joined to other key-value pairs with underscores ``_``.
    The exception is the modality label, which is discussed more below.