jesse paquette wrote:
> Hello all,
> 
> I'm currently going through the BASE 2.1 getting started document located at 
> (http://base.thep.lu.se/chrome/site/doc/user/getting_started.html).  I'm 
> running Windows XP, and there are a few things with BASE I've noticed that 
> aren't so compatible with my OS.
> 
> First, it's not to easy to create a symbolic link to the BASE www directory. 
>   My workaround is to copy the BASE "www" directory over to the Tomcat 
> "webapps" directory and rename it to "base2".

That's ok.


> Secondly, I'm trying to install the Affymetrix/RMAExpress/Plier plugin, and 
> I'm at the part that requires make to install the precompiled plugin into 
> the plugins directory.  I downloaded NMake for Windows, but I've got a 
> compile error.  Here's my command:

I am not sure about nmake compatibility with GNU make, gmake. You'd be 
better of with gmake but maybe it is not available for you.


> nmake BASEROOT="C:/Program Files/BASE/base-2.4.0" install-precompiled
> 
> The make error is this:
> 
> makefile(62) : fatal error U1036: syntax error : too many names to left of 
> '='
> 
> Line 62 in the makefile is:
> 
> BASEROOT ?= /usr/local/base
> 
> After trying a bunch of different things, I found that if I hard coded the 
> Makefile line to :
> 
> BASEROOT = "C:\Program Files\BASE\base-2.4.0"
> 
> and removed all of the '?' characters from the "?=" lines, NMake proceeded 
> until it encountered another problem.
> 
> "install is not recognized as an internal or external command, operable 
> program or batch file."
> 
> Poking around the rest of the Makefile yields a number of other non-Windows 
> commands.
> 
> My workaround: I just created the directories and moved the affymetrix.jar 
> file manually.  Will that be a problem?

No, problems at all. 'make install' simply creates the necessary 
directory structure and copies the jar to the requested directory.


> I'm really trying to avoid using CygWin or any other third-party 
> LINUX-emulating application, since going that route would mean that I should 
> probably just be installing BASE on a non-windows OS.
> 
> Jesse

Remember to place the plier and rmaexpress binaries in the same 
directory as you placed the jar file.


Was the above the only things you needed to do to get BASE to run on MS 
Windows?



Cheers,

Jari

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