More improvements.

docs/installation.rst

@@ -16,7 +16,7 @@ initialize a new conda environment (for example, named ``cubids``) as follows:
 
 .. code-block:: console
 
-    $ conda create -n cubids python=3.8
+    $ conda create -n cubids python=3.8 pip
     $ conda activate cubids
 
 You are now ready to install CuBIDS.
@@ -43,7 +43,6 @@ Once you have a copy of the source, you can install it with:
     $ cd CuBIDS
     $ pip install -e .
 
-
 We will now need to install some dependencies of ``CuBIDS``.
 To do this, we first must install nodejs.
 We can accomplish this using the following command:
@@ -52,7 +51,7 @@ We can accomplish this using the following command:
 
     $ conda install nodejs
 
-Now that we have npm installed, we can install the ``bids-validator`` using the following command:
+Now that we have npm installed, we can install ``bids-validator`` using the following command:
 
 .. code-block:: console
 

docs/usage.rst

@@ -17,7 +17,7 @@ Key Group
 
 A *Key Group* is a unique set of BIDS key-value pairs, excluding identifiers such as
 subject and session.
-For example the files::
+For example, the files::
 
     bids-root/sub-1/ses-1/func/sub-1_ses-1_acq-mb_dir-PA_task-rest_bold.nii.gz
     bids-root/sub-1/ses-2/func/sub-1_ses-2_acq-mb_dir_PA_task-rest_bold.nii.gz
@@ -30,7 +30,7 @@ this naming convention would suffice.
 
 However, in large multi-scanner, multi-site,
 or longitudinal studies where acquisition parameters change over time,
-it's possible that the same Key Group could comprise scans that differ in important ways.
+it's possible that the same Key Group could contain scans that differ in important ways.
 
 ``CuBIDS`` examines all acquisitions within a Key Group to see if there are any images
 that differ in a set of important acquisition parameters.
@@ -52,15 +52,6 @@ there can be detrimental consequences downstream if the different parameters cau
 same preprocessing pipelines to configure differently to images of the same Key Group.
 
 
-Acquisition Group
-~~~~~~~~~~~~~~~~~
-
-Acquisition Groups are sets of subjects whose images belong to all the same Key and Parameter Groups.
-The Acquisition Groups that subjects belong to are listed in ``_AcqGrouping.csv``,
-while the Key Groups and Parameter Groups that define each Acquisition Group are noted in
-``_AcqGroupingInfo.txt``.
-
-
 .. _acquisitiongroup:
 
 Acquisition Group
@@ -80,6 +71,10 @@ They are also useful for expediting the testing of pipelines;
 if a BIDS App runs successfully on a single subject from each Acquisition Group,
 one can be confident that it will handle all combinations of scanning parameters in the entire dataset.
 
+The Acquisition Groups that subjects belong to are listed in ``_AcqGrouping.csv``,
+while the Key Groups and Parameter Groups that define each Acquisition Group are noted in
+``_AcqGroupingInfo.txt``.
+
 
 .. _summaryfile: