Update README.md

README.md

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 # pyms
-The original source is a python package called pyms that was developed and published in 2012.
-See here: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-13-115
+Original Publication:
+https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-13-115
 
-The code was stored on google code, you can see the archive here: http://code.google.com/p/pyms/
+PyMS was originally stored on googlecode, and moved to github when google code closed. The same group - Metabolomics Australia at the Bio21 Institute, University of Melbourne, manages the github repo. For any further information on the history of PyMS please email the maintainer: Sean O'Callaghan, [email protected].
 
-The upstream repository here on github from @ma-bio21 which I assume is related to the origin
-of the code (the bio 21 institute in Melbourne) seems more up to date than the code found in the archive, 
-most notably the implementation of using mpi4py in ANDI file batches. There are other differences though, 
-some bug fixes and added functionality.
-
-A note: in the setup.py there is a requirement for the Pycluster library and it is used in the 
-files found in the ./Peak/List/DPA directory, but installing the library from pip failed on my machine 
-(Linux Mint 18 Sarah with python 2.7.12 installed). Another package, biopython, contains a treeclustering
-function that seems to be identical in terms of function, see e.g. the test package shown here:
-http://nullege.com/codes/search/Bio.Cluster.treecluster.
-I adapted the same approach where Pycluster was invoked since biopython installed without problem but 
-can't test it since the data refenced in the manual is not available any more.
-
-
-A diff of the two directories (from git and from google code) list the following files as different:
-- ./Deconvolution/BillerBiemann/Function.py 
-- ./Display/Class.py 
-- ./Display/Class.pyc 
-- ./Experiment/IO.py 
-- ./Gapfill/Class.py 
-- ./Gapfill/Function.py 
-- ./Gapfill/__init__.py 
-- ./GCMS/Class.py 
-- ./GCMS/IO/ANDI/Function.py 
-- ./GCMS/IO/MZML/Function.py 
-- ./GCMS/IO/MZML/__init__.py 
-- ./Peak/Class.py 
-- ./Peak/List/DPA/Class_old.py 
-- ./Peak/List/DPA/Class.py 
-- ./Peak/List/DPA/Function_new.py 
-- ./Peak/List/DPA/Function.py 
-- ./Utils/DP.py 
+The main PyMS documentation is available here: https://github.com/ma-bio21/pyms-docs
+Test code available here: https://github.com/ma-bio21/pyms-test