[Biojava-l] SCF file wont load from URL

[K.R. Carter]

Thanks Andy,

I programmatically set the proxy however, it still does not solve the
problem.

On 8/31/06, Andy Yates <ady at sanger.ac.uk> wrote:
>
> That sounds like http proxy problems in my book.
>
> Try looking at this page: http://mindprod.com/jgloss/proxy.html
>
> The main thing to take home is try setting the system properties:
>
> proxySet=true
> http.proxyHost=proxyHostName
> http.proxyPort=proxyHostPort
>
> You can do this programatically using the System.setProperty() method or
> with -DpropertyName=propertyValue from the command line.
>
> Hope that helps,
>
> Andy Yates
>
> mark.schreiber at novartis.com wrote:
> > Hi -
> >
> > This sounds very strange. Is there any stack trace? Could you possibly
> > post the code that recreates the problem?
> >
> > - Mark
> >
> >
> >
> >
> >
> > "K.R. Carter" <k_stellar at msn.com>
> > Sent by: biojava-l-bounces at lists.open-bio.org
> > 08/31/2006 04:34 AM
> > Please respond to kikia.reneese
> >
> >
> >         To:     biojava-l at biojava.org
> >         cc:     (bcc: Mark Schreiber/GP/Novartis)
> >         Subject:        [Biojava-l] SCF file wont load from URL
> >
> >
> > Hello,
> >
> > I am trying to load an scf file by using the input stream from a url and
> > it
> > will not load. Does anyone know what might be happening? My program
> doesnt
> > give an error, it just completely freezes.  I am using the latest ( i
> > think)
> > version of SCF class.
> >
> >
> > /**
> >  * A {@link org.biojava.bio.chromatogram.Chromatogram} as loaded from an
> >  * SCF v2 or v3 file.  Also loads and exposes the SCF format's "private
> > data"
> >  * and "comments" sections.  The quality values from the SCF are stored
> as
> >  * additional sequences on the base call alignment. The labels are the
> >  * <code>PROB_</code>* constants in this class.
> >  * The values are {@link
> > org.biojava.bio.symbol.IntegerAlphabet.IntegerSymbol}
> >  * objects in the range 0 to 255.
> >  *
> >  *
> >  * @author Rhett Sutphin (<a href="http://genome.uiowa.edu/">UI
> CBCB</a>)
> >  */
> >
> > any help would be greatly appreciated.
> >
> > Thanks!
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> >
> >
> >
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>