Ok, adding that info to treebase-web.xml has fixed things on 6666
On Fri, Feb 12, 2010 at 2:32 AM, Jon Auman via RT <he...@ne...> wrote:
> Bill,
>
> OK. I fixed it (again). There are two things that need to be set for mesquite to work:
>
> 1)Add this to the Tomcat startup script:
>
> # Headless mesquite needs a window server (a virtual one is OK)
> export DISPLAY=localhost:1.0
>
> 2) Add this to the CATALINA_HOME/conf/Catalina/localhost/treebase-web.xml file:
>
> <Environment name="tb2/MesquiteFolder" value="/home/treebasedev/mesquite-
> 2.01.tb"
> type="java.lang.String" override="false"
> description="Absolute path to the directory where headless Mesquite is unpacked on
> the host system."/>
>
> I had changed the path for treebasedev home directory, and forgot to change it in treebase-
> web.xml. It's in my notes now and I'll make sure its gets entered in the treebase wiki at
> Sourceforge.
>
>
> BTW, the output form uploading the test file you sent me yesterday is:
>
> File upload summary:
> One matrix uploaded
> One tree uploaded
>
>
> The Parser Log:
> Reading NEXUS file testfile.nex
> Reading special block: DATA
> Reading block: CODONS
> Reading block: TREES
> Reading block: ASSUMPTIONS
> Reading block: Mesquite
> NOTICE null
> *************************
> The current release version of Mesquite is 2.72 build 527 (the version you have installed is
> 2.01). The latest version is downloadable at:
> http://mesquiteproject.org/mesquite/download/download.html
> *************************
>
> File reading complete (file testfile.nex)
>
> -Jon
>
> On Thu Feb 11 04:55:15 2010, wil...@ya... wrote:
>>
>> On Feb 9, 2010, at 4:59 PM, Jon Auman wrote:
>>
>> > Bill,
>> >
>> > This has been fixed. Mesquite requires that the tomcat startup
>> script export the display
>>
>> Hi Jon,
>>
>> Thanks for whatever you did... but I still can't seem to upload any
>> nexus files... I get a "File upload summary: No matrices or trees
>> uploaded" message. I'm using the dev instance -- tried it with
>> both the port 80 and port 6666 builds. Is there a particular
>> deployment that I should be testing? (attached is a test file, if
>> you need something to try).
>>
>> Bill
>>
>>
>>
>
>
> --
> Jon Auman
> NESCent, Systems Administrator
> jon...@ne...
> 919-627-2708
>
>
>
> For more info:
> Ticket <URL: https://help.nescent.org/Ticket/Display.html?id=7349 >
>
>
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