added windows instructions

README.md

@@ -16,15 +16,32 @@ A demo with some of the functionality is at: [https://ollybutters.github.io/puma
 
 The wiki (<https://github.com/OllyButters/puma/wiki>) has the best instructions, but in overview:
 
+### Linux
 - Assuming a linux environment with python 3 installed.
 - Add all the required python libraries with the requirements.txt file in the source folder:
 
     `pip3 install -r requirements.txt`
 - Edit the config.ini file in the config folder so it has your API keys etc.
+- Run the pipeline from within the source folder with a command like:
+
+    `./papers.py`
+
+- Or you can run it from within an IDE.
+- Once it has finished, have a look at the web pages in the html folder. Pay particular attention to the coverage_report.html file.
+
+### Windows
+- Assuming a windows environment (I've only tried Windows 10) with python 3 installed (at least python 3.6 as utf-8 support is a little flakey before that).
+- Add all the required python libraries with the requirements.txt file in the source folder by running a command like the following with the command prompt:
+
+    `py -3 -m pip install --user -r requirements.txt`
+- Edit the config.ini file in the config folder so it has your API keys etc.
 - Run the pipeline with a command like:
-  `./papers.py`
+
+    `python papers.py`
+- Or you can run it from within an IDE.
 - Once it has finished, have a look at the web pages in the html folder. Pay particular attention to the coverage_report.html file.
 
+
 ## PUMA project publications
 
 Butters et al., 2019. DOI: [10.12688/wellcomeopenres.14986.1](https://dx.doi.org/10.12688%2Fwellcomeopenres.14986.1)