For sure there are many space ground stations that use Linux. I'm aware of 
at least one I've been working in, which had All LINUX, WINDOWS & QNX. A 
space station is fair complex to have many OSs each for different 
purpose/subsystem. The International Space Station (ISS)  that the article 
Meckkawy has sent is a famous space station that many of long term missions 
-if not all- pass by. And what they have migrated to use linux are "laptops 
that provide the ISS crew with vital capabilities for day-to-day 
operations". Not the software on the ISS itself. The other new thing 
introduced that will be based on Linux too is " the ISS – Robonaut (R2). 
Designed to take over some of the astronaut’s responsibilities, R2 will be 
the first humanoid robot in space. Running on Linux, the robot can be 
manipulated by onboard astronauts with ground controllers commanding it 
into position and performing operations.", just for the complete info to be 
provided. 

On Thursday, March 28, 2013 8:10:45 PM UTC+2, rafik guirguis wrote:
>
> They were running the ISS on windows XP sp3.
>
> Source: 
> http://arstechnica.com/gadgets/2013/03/how-nasa-got-an-android-handset-ready-to-go-into-space/
>
> Quote: "ThinkPad T61p laptops loaded with Windows XP Service Park 3"
> <http://arstechnica.com/gadgets/2013/03/how-nasa-got-an-android-handset-ready-to-go-into-space/>
>
> <http://arstechnica.com/gadgets/2013/03/how-nasa-got-an-android-handset-ready-to-go-into-space/>
>
>
> On Thu, Mar 28, 2013 at 4:38 PM, [email protected] <javascript:> <
> [email protected] <javascript:>> wrote:
>
>> I can't get it! They were running space stations on windows?!!!!! 
>> Seriously?!
>>
>> ----------------------*
>> Mosab Ahmad *
>> Entrepreneur in the make
>>
>> Cell : +201119942443
>> E-mail : [email protected] <javascript:>
>> LinkedIn : http://www.linkedin.com/in/mosab
>> github : https://github.com/mos3abof
>>  
>>
>> On Thu, Mar 28, 2013 at 4:14 PM, Ahmed Kamal 
>> <[email protected]<javascript:>
>> > wrote:
>>
>>> And the cooler thing, is that they're migrating off of Windows :)
>>>
>>>
>>> On Thu, Mar 28, 2013 at 4:12 PM, Ahmed Faissl 
>>> <[email protected]<javascript:>
>>> > wrote:
>>>
>>>> "A" space station?
>>>> this is the only one out there :)
>>>>
>>>>
>>>> On Thu, Mar 28, 2013 at 4:03 PM, Ahmed Mekkawy <
>>>> [email protected] <javascript:>> wrote:
>>>>
>>>>>
>>>>> http://www.linux.com/news/featured-blogs/191-linux-training/711318-linux-foundation-training-prepares-the-international-space-station-for-linux-migration
>>>>>
>>>>>
>>>>> ----
>>>>> Ahmed Mekkawy
>>>>> Founder | CTO
>>>>> Spirula Systems
>>>>> www.spirulasystems.com
>>>>>  
>>>>> -- 
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>>>>>  
>>>>>  
>>>>>
>>>>
>>>>
>>>>
>>>> -- 
>>>>
>>>> Ahmed Faissl 
>>>> <http://facebook.com/faissl> <
>>>> https://plus.google.com/113729684348889983101>
>>>>   <http://about.me/faissl>  <[email protected] <javascript:>> <
>>>> http://www.linkedin.com/profile/view?id=55099327>
>>>>   <http://twitter.com/faissl>  <http://blog.aldarweesh.org/>
>>>> Goes without saying..
>>>>
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>>>>
>>>
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>
>

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