Added guide to start ilastik from command line on windows

Author: k-dominik

documentation/basics/cmdflags_win.md

@@ -0,0 +1,66 @@
+---
+title: Command line flags on Windows
+tagline: 
+category: "Documentation"
+group: ""
+weight: 1
+---
+
+# Command-line flags on windows
+
+The behavior of ilastik can be influenced by supplying options upon start-up.
+You have to supply these options as command-line arguments when ilastik is started.
+
+We'll go through two methods of starting ilastik with additional options:
+
+1) Starting ilastik form the _Command Prompt_: Especially useful for running ilastik in [headless mode]({{site.baseurl}}/documentation/headless.html).
+2) Creating a link on the desktop with command line options: This is a more permanent way for options you always want to supply.
+
+## Start ilastik via the terminal/command-line
+
+The command line is just another interface to interact with your computer (as, e.g. opposed to using the mouse).
+It is a special window, where you type in commands that are executed when you press "Enter".
+Using the command line interface is especially useful for running ilastik in [headless mode]({{site.baseurl}}/documentation/headless.html), where you often supply changing options, depending on what project/data you wish to process.
+
+1) __Start the command prompt (`cmd.exe`)__: type `cmd` into the search field, click on "Command Prompt" to start a terminal window. (A new window should pop up):
+
+<!-- TODO: insert image -->
+
+Note that there is a blinking indicator (the cursor) where text commands will appear whe you type.
+To the left of the cursor, the current location is shown (here: `C:\Users\kutra`).
+Per default the command prompt starts in your user home folder.
+
+2) __Navigate to your ilastik installation__: in this terminal window you have to navigate to the ilastik installation folder in order to start ilastik.
+If you didn't change ilastik install location this should be "C:\Program Files\ilastik-1.X.Y" (where `X.Y` are placeholders that you should replace with your installed version - we'll stick with `1.3.3post2` for this example).
+So in the command prompt, type (including the quote marks) and press enter:
+ ```cmd
+cd "C:\Program Files\ilastik-1.3.3post2"
+```
+you should now see `C:\Program Files\ilastik-1.3.3post2>` left of the cursor.
+
+3) __start ilastik__: here you can start ilastik and supply the `--headless` flag by typing
+```cmd
+ilastik.exe --headless
+```
+You will get a message back that you have to supply at least the `--project` argument as an additional option.
+Read more in the [headles mode documentation]({{site.baseurl}}/documentation/headless.html)!
+
+
+## Create a shortcut with the command line flag
+
+The second method is for a more permanent setup.
+You will create a shortcut to ilastik on your desktop that will always supply the `--hbp` flag, that you can then simply double-click.
+This currently (ilastik `1.4.0b3`) enables the [Voxel Segmentation Workflow]({{site.baseurl}}/documentation/VoxelSegmentation/VoxelSegmentation.html), which is hidden, otherwise.
+
+1) __locate ilastik in your start menu__:
+
+<!-- TODO: insert image -->
+
+2) __create a link on the desktop__: click on it with the left mouse button and hold the button while dragging it to the desktop.
+You have created a link (visible by the little curved arrow in the lower-left corner):
+
+<!-- TODO: add image -->
+
+* __Add the command line option__: edit the properties (right click - Properties) of the link to include the command line flag (highlighted in yellow in the following screenshot):
+
+<!-- TODO: Add image -->

documentation/basics/headless.md

@@ -32,7 +32,7 @@ Mac:
 
     $ ./ilastik-1.3.2-OSX.app/Contents/ilastik-release/run_ilastik.sh  --headless --project=MyProject.ilp my_next_image1.png my_next_image2.png
 
-Windows:
+Windows ([click here for a more detailed guide]({{site.baseurl}}/documentation/basics/cmdflags_win.html)):
 
     $ cd "\Program Files\ilastik-1.3.2"
     $ .\ilastik.bat --headless --project=MyProject.ilp my_next_image1.png my_next_image2.png