Update installation instructions.

README.md

@@ -8,13 +8,27 @@ FSL-MRS is a collection of python modules and wrapper scripts for pre-processing
 ---
 ### Installation 
 
-To get the packaged example data, make sure [git-lfs](https://git-lfs.github.com/) is installed.
+#### Conda package
+The primary installation method is via _conda_. After installing conda and creating or activating a suitable [enviroment](https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-environments.html) you can install FSL-MRS from the FSL conda channel.
+
+    conda install -c conda-forge \
+                  -c https://fsl.fmrib.ox.ac.uk/fsldownloads/fslconda/channel/ \
+                  fsl_mrs
+
+#### Source code
+
+To get the source code with the packaged example data, make sure [git-lfs](https://git-lfs.github.com/) is installed.
 
     git clone --recurse-submodules https://git.fmrib.ox.ac.uk/saad/fsl_mrs.git
     cd fsl_mrs
     pip install .
 
 #### Dependencies
+The spec2nii package can be installed to convert data to NIfTI format.
+
+    conda install -c conda-forge spec2nii
+
+or
 
     pip install spec2nii
 
@@ -43,14 +57,14 @@ After installation see the [quick start guide](https://users.fmrib.ox.ac.uk/~saa
 
 ---
 
-### Usage
+### Documentation
+
+Documentation can be found online [here](https://users.fmrib.ox.ac.uk/~saad/fsl_mrs/html/index.html).
 
 For each of the wrapper scripts above, simply type `<name_of_script> --help` to get the usage.
 
 Example command-line usage is demonstrated in the packaged [Jupyter Notebook](https://git.fmrib.ox.ac.uk/saad/fsl_mrs/-/blob/master/example_usage/Example%20SVS%20processing%20-%20command-line.ipynb.).
 
-Documentation can be found online [here](https://users.fmrib.ox.ac.uk/~saad/fsl_mrs/html/index.html).
-
 ### File types
 
 FSL-MRS accepts FID data in NIfTI + JSON format. Some scripts can also read .RAW (LCModel) and text (jMRUI).

docs/user_docs/conf.py

@@ -36,7 +36,7 @@ rst_epilog = """
 .. |fsl_version|     replace:: 6.0.4
 
 .. |fslmrs_gitlab| replace:: FSL-MRS GitLab
-.. _fslmrs_gitlab: https://git.fmrib.ox.ac.uk/saad/fsl_mrs
+.. _fslmrs_gitlab: https://git.fmrib.ox.ac.uk/fsl/fsl_mrs
 """
 
 

docs/user_docs/install.rst

@@ -16,7 +16,18 @@ Download or clone from |fslmrs_gitlab|_. `Git LFS <https://git-lfs.github.com/>`
 2. From Conda
 ~~~~~~~~~~~~~
 
-TBC
+The primary installation method is via *conda*. After installing conda and creating or activating a suitable `enviroment <https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-environments.html>`_ you can install FSL-MRS from the FSL conda channel.
 
+::
+
+    conda install -c conda-forge \
+                  -c https://fsl.fmrib.ox.ac.uk/fsldownloads/fslconda/channel/ \
+                  fsl_mrs
 
+spec2nii
+~~~~~~~~
+To convert data to NIfTI install the spec2nii program from conda.
+
+::
 
+    conda install -c conda-forge spec2nii