updating notes for PYMEnf, other auxiliary packages

Author: csoeller

Installing-PYME-with-py3-macos.md

@@ -128,3 +128,6 @@ This should bring up dh5view with a small image containing random noise, as show
 
 ![dh5view-test](images/dh5view-test.png)
 
+##### Build other auxiliary packages
+
+We have a few additional auxiliary packages, such as `PYME-extra`, `PYMEnf` and `PYME-cs-siteconfig` plus some sample data (`PYME-extra-example-data`). We have [installation notes](Installing-PYMEnf.md) for `PYMEnf`. `PYME-extra` is covered in the [PYME windows installation notes](Installing-PYME-with-py3-win10.md). `PYME-cs-siteconfig` has [its own notes](PYMEAcquire/PYME-cs-siteconfig.md) in the `PYMEAcquire` section of these installation notes.

Installing-PYME-with-py3-win10.md

@@ -189,6 +189,9 @@ Note that we leave out the ```dist``` argument in the plugin install call since
 
 6. Test: At this stage you should bring up visgui again, say, and check that all the expected extra menus are available. [*Note to self, show what menus should be available*]
 
+##### Optional: build PYMEnf
+
+Local users may want to install and build `PYMEnf` that contains a few select non-free plugins (which we cannot easily make public due to licensing constraints). Details are in the [PYMEnf installation notes](Installing-PYMEnf.md).
 
 #### 6. Make a few shortcut files and launchers
 

Installing-PYMEnf.md

@@ -2,9 +2,9 @@
 
 ## Unzip the pymenf code
 
-I have resorted to distributing the PYMEnf code via a zip archive (long story why this is not shared via github at the moment). The file ```pymenf.zip``` is available from our ```CS lab``` Teams group chat in the ```Files``` section.
+I have resorted to distributing the PYMEnf code via a zip archive (long story why this is not publicly shared via github at the moment). A zip file of  ```PYMEnf``` named with `pymenf` and a date in the name can be found in the `PYMEnf` subdirectory of our shared OneDrive folder with microscopy related stuff.
 
-Get the archive from there and unpack into the same directory that has already the ```python-microscopy``` and ```PYME-extra``` repos in it. Unpacking it should create a new folder ```pymenf```.
+Get the archive from there and unpack into the same directory that has already the ```python-microscopy``` and ```PYME-extra``` repos in it. Unpacking it should create a new folder ```pymenf-master``` (the `master` bit refers to this stemming from the `master` branch of the repo).
 
 
 ## Build the pymenf code

PYMEAcquire/PYME-cs-siteconfig.md

@@ -16,6 +16,12 @@ This is done using
 
 We generally pick these up via the [launcher scripts](../PYME-windows-launchers.md) which include a path to the init file location.
 
+## Launcher scripts
+
+The launcher scripts are generally installed by creating shortcuts to the relevant set of files from the repo and moving these shortcuts to the public desktop. See also the launcher related instructions about the [main setup with conda](conda-setup.md).
+
+**TODO**: make a script to autogenerate and move the shortcuts to the public desktop.
+
 ## Dye Ratios
 
 The repo also contains a file with dye ratios for a number of splitter dichroics.