[DAS] Possible XML error with LDAS 1.08

[Lincoln Stein]

Hi Mark,

This was a persistent typo.  I meant 1.09 and 1.10

Lincoln

On Tuesday 05 November 2002 10:23 am, you wrote:
> Thanks, can you tell me where to find the 2.__ versions? The
> http://www.biodas.org/download/ldas/ site just has the 1.__ versions.
>
> Mark
>
> -----Original Message-----
> From: Lincoln Stein [mailto:lstein@cshl.org]
> Sent: Monday, November 04, 2002 6:42 PM
> To: Gosink, Mark (SEA)
> Subject: Re: [DAS] Possible XML error with LDAS 1.08
>
>
> The XML error is fixed in version 2.09, which I posted sometime last week.
> Thanks for the warning warning!  That'll get fixed in 2.10
>
> Lincoln
>
> On Monday 04 November 2002 05:25 pm, Gosink, Mark (SEA) wrote:
> > Hello Lincoln,
> > 	Thanks for the fix. Unfortunately I think there are a few more bugs.
> > line 114
> > 	  print qq(<?xml version="1.0" standalone="yes"?\n);
> > note the missing ">" at the end
> >
> > line 218
> > 	    warn "reference = $reference";
> > This appears to be an unconditional warn statement (left on from
> > debugging?) which does funny things to the das client
> > Thanks,
> > Mark
> > P.S. Would you prefer I send this to the das@biodas.org site?
> >
> > -----Original Message-----
> > From: Lincoln Stein [mailto:lstein@cshl.org]
> > Sent: Friday, November 01, 2002 7:49 AM
> > To: Gosink, Mark (SEA); 'das@biodas.org'
> > Subject: Re: [DAS] Possible XML error with LDAS 1.08
> >
> >
> > Sorry about that.  This should be fixed in the version I uploaded
> > yesterday.
> >
> > Lincoln
> >
> > On Monday 28 October 2002 05:59 pm, Gosink, Mark (SEA) wrote:
> > > Hello all,
> > > 	I'm getting an error with the output from the LDAS version 1.08 when
> > > I run the test URL:
>
> http://my.web.address/cgi-bin/das/dicty/features?segment=Cont_1a;type=RNA
>
> > >i
> > >
> > > 	Below is the output generated. Notice the "<GROUP
> > > id="RNAi:exper1"RNAi />".  For some reason the XML doesn't appear to be
> > > forming correctly. It happens with some of the other test urls as well.
> > > Is this a bug or am I missing something? Does this happen with the
> > > earlier versions?
> > > Thanks,
> > > Mark
> > >
> > > <?xml version="1.0" standalone="yes"?>
> > > <!DOCTYPE DASGFF SYSTEM "http://www.biodas.org/dtd/dasgff.dtd">
> > > <DASGFF>
> > > <GFF version="1.01"
>
> href="http://my.web.address/cgi-bin/das/dicty/features?segment=Cont_1a;type
>
> > >= RNAi">
> > > <SEGMENT id="Cont_1a" start="1" stop="5000" version="1.0">
> > >    <FEATURE id="RNAi:exper1/31" label="exper1">
> > >       <TYPE id="RNAi" category="experimental">RNAi</TYPE>
> > >       <METHOD id="RNAi">RNAi</METHOD>
> > >       <START>1</START>
> > >       <END>2500</END>
> > >       <SCORE>-</SCORE>
> > >       <ORIENTATION>+</ORIENTATION>
> > >       <PHASE>0</PHASE>
> > >       <GROUP id="RNAi:exper1"RNAi />
> > >    </FEATURE>
> > > </SEGMENT>
> > > </GFF>
> > > </DASGFF>
> > >
> > >
> > >
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