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.\" ========================================================================
.\"
.IX Title "Bio::SeqIO::asciitree 3pm"
.TH Bio::SeqIO::asciitree 3pm "2020-10-28" "perl v5.30.3" "User Contributed Perl Documentation"
.\" For nroff, turn off justification.  Always turn off hyphenation; it makes
.\" way too many mistakes in technical documents.
.if n .ad l
.nh
.SH "NAME"
Bio::SeqIO::asciitree \- asciitree sequence input/output stream
.SH "SYNOPSIS"
.IX Header "SYNOPSIS"
.Vb 2
\&  # It is probably best not to use this object directly, but
\&  # rather go through the SeqIO handler system. Go:
\&
\&    $instream  = Bio::SeqIO\->new(\-file => $filename,
\&                                 \-format => \*(Aqchadoxml\*(Aq);
\&    $outstream = Bio::SeqIO\->new(\-file => $filename,
\&                                 \-format => \*(Aqasciitree\*(Aq);
\&
\&    while ( my $seq = $instream\->next_seq() ) {
\&            $outstream\->write_seq();
\&    }
.Ve
.SH "DESCRIPTION"
.IX Header "DESCRIPTION"
This is a WRITE-ONLY SeqIO module. It writes a Bio::SeqI object
containing nested SeqFeature objects in such a way that the SeqFeature
containment hierarchy is visible as a tree structure
.SH "FEEDBACK"
.IX Header "FEEDBACK"
.SS "Mailing Lists"
.IX Subsection "Mailing Lists"
User feedback is an integral part of the evolution of this and other
Bioperl modules. Send your comments and suggestions preferably to one
of the Bioperl mailing lists.  Your participation is much appreciated.
.PP
.Vb 2
\&  bioperl\-l@bioperl.org                  \- General discussion
\&  http://bioperl.org/wiki/Mailing_lists  \- About the mailing lists
.Ve
.SS "Support"
.IX Subsection "Support"
Please direct usage questions or support issues to the mailing list:
.PP
\&\fIbioperl\-l@bioperl.org\fR
.PP
rather than to the module maintainer directly. Many experienced and 
reponsive experts will be able look at the problem and quickly 
address it. Please include a thorough description of the problem 
with code and data examples if at all possible.
.SS "Reporting Bugs"
.IX Subsection "Reporting Bugs"
Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution.  Bug reports can be submitted via the web:
.PP
.Vb 1
\&  https://github.com/bioperl/bioperl\-live/issues
.Ve
.SH "AUTHOR \- Chris Mungall"
.IX Header "AUTHOR - Chris Mungall"
Email cjm@fruitfly.org
.SH "APPENDIX"
.IX Header "APPENDIX"
The rest of the documentation details each of the object
methods. Internal methods are usually preceded with a _
.SS "show_detail"
.IX Subsection "show_detail"
.Vb 6
\& Title   : show_detail
\& Usage   : $obj\->show_detail($newval)
\& Function:
\& Example :
\& Returns : value of show_detail (a scalar)
\& Args    : on set, new value (a scalar or undef, optional)
.Ve
.SS "next_seq"
.IX Subsection "next_seq"
.Vb 5
\& Title   : next_seq
\& Usage   : $seq = $stream\->next_seq()
\& Function: returns the next sequence in the stream
\& Returns : Bio::Seq object
\& Args    :
.Ve
.SS "write_seq"
.IX Subsection "write_seq"
.Vb 5
\& Title   : write_seq
\& Usage   : $stream\->write_seq($seq)
\& Function: writes the $seq object (must be seq) to the stream
\& Returns : 1 for success and 0 for error
\& Args    : array of 1 to n Bio::SeqI objects
.Ve