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	<fb086370-5d81-4ed9-8fb8-1483c1a22142@googlegroups.com>
Date: Tue, 30 Oct 2012 12:50:45 -0700
Message-ID: <CAOZLXSnMCc9OLMhsEVsUXWBKtD8C_meHX6sPOXRtYiy2rV+...@mail.gmail.com>
Subject: Re: [circos] Re: problems with table viewer
From: Martin Krzywinski <martin.krzywin...@gmail.com>
To: circos-data-visualization@googlegroups.com
Content-Type: text/plain; charset=ISO-8859-1

This issue is due to how new versions of Perl trigger warnings for the
'lc' function.

The original module (Graphics::ColorObject) has not been updated by
the author to check that the argument to lc is defined. The warning is
annoying, but harmless.

Circos itself no longer uses this module for this very reason, given
that only a few functions from the module were being used - those that
convert between HSB to RGB.

Martin Krzywinski
science + art
http://mkweb.bcgsc.ca



On Mon, Oct 29, 2012 at 5:56 AM, JFP <juanfpoya...@gmail.com> wrote:
> Hi again,
>
> for the record, the solution of this is ... that it does not need any
> solution since the error is just a warning linked to the perl version.
> Still, producing figures out of tables is not always an easy task ... as one
> has to correct for several problems with the different 'conf' files.
>
> Once this is done, circos does generate beautiful pictures,
> Best,
> -juan
>
>
> On Thursday, October 25, 2012 12:34:57 AM UTC+2, JFP wrote:
>>
>> Hi,
>>
>> I am trying to run table viewer in a mac (OS X version 10.7.4) but I get
>> the following error after running >cat table.txt | perl bin/parse-table >
>> parsed.txt
>>
>> "Use of uninitialized value within @_ in lc at
>> /Library/Perl/5.12/Graphics/ColorObject.pm line 1905.". This sentence is
>> repeated many times.
>>
>> I have seen this error posted earlier but I can't find a solution.
>>
>> Circos worked fine otherwise,
>>
>> thanks!
>>
>> -juan
>>
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