Jason,

The LAJ tool is something we deprecated and removed from production a while 
back, recommending MAF over AXT.  Something you might be able to try would be 
converting your AXT file to MAF and then use GMAJ for visualization.

Thanks!

-Dannon


On May 17, 2011, at 8:32 PM, Ellul Jason wrote:

> Hi All,
> 
> I have been able to workaround the problem I was having by modifying the 
> LAJ_code.py to include 'and data != None' on each of the elif statements.
> i.e.
> 
>        if name == "maf_input":
>            params["alignfile1"] = "display?id=%s" % data.id
>        elif name == "seq_file1" and data != None and data.state == 
> data.states.OK and data.has_data():
>            params["file1seq1"] = "display?id=%s" % data.id
>        elif name == "seq_file2" and data != None and data.state == 
> data.states.OK and data.has_data():
>            params["file1seq2"] = "display?id=%s" % data.id
>        elif name == "exonfile" and data != None and data.state == 
> data.states.OK and data.has_data():
>            params["exonfile"] = "display?id=%s" % data.id
>        elif name == "repeatfile" and data != None and data.state == 
> data.states.OK and data.has_data():
>            params["repeatfile"] = "display?id=%s" % data.id
>        elif name == "annotationfile" and data != None and data.state == 
> data.states.OK and data.has_data():
>            params["annotationfile"] = "display?id=%s" % data.id
>        elif name == "underlayfile" and data != None and data.state == 
> data.states.OK and data.has_data():
>            params["underlayfile"] = "display?id=%s" % data.id
>        elif name == "highlightfile" and data != None and data.state == 
> data.states.OK and data.has_data():
>            params["highlightfile"] = "display?id=%s" % data.id
> 
> For some reason, even though repeatfile is optional the script always thinks 
> that a file has been selected, even when one has not. Hence data is equal to 
> None and it throws a 'nonetype has no attribute state' error when it checks 
> data.state==data.states.OK.
> 
> Could a developer please look into why it would think a file for the option 
> repeatfile had been selected when one hasn't.
> 
> Cheers,
> -- 
> 
> Jason Ellul 
> Bioinformatician 
> Cancer Research Division
> 
> Peter MacCallum Cancer Centre 
> TEL: +61 3 9656 1512 
> FAX: +61 3 9656 1411 
> EMAIL: jason.el...@petermac.org  
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