<div>We too see that same effect on our data. I have not been able to remedy it either. we are running 1.70</div>
<div> </div>
<div>Mark<br><br></div>
<div class="gmail_quote">On Fri, Dec 18, 2009 at 2:13 AM, Keiran Raine <span dir="ltr"><<a href="mailto:kr2@sanger.ac.uk">kr2@sanger.ac.uk</a>></span> wrote:<br>
<blockquote style="BORDER-LEFT: #ccc 1px solid; MARGIN: 0px 0px 0px 0.8ex; PADDING-LEFT: 1ex" class="gmail_quote">
<div style="WORD-WRAP: break-word">Hi,<br><br>This is in 1.997.<br><br>Thanks
<div><br></div>
<div>BTW, I got an undeliverable notification from <a href="mailto:help@gmod.org" target="_blank">help@gmod.org</a> when I first sent this.
<div class="im"><br>
<div><span style="TEXT-TRANSFORM: none; TEXT-INDENT: 0px; BORDER-COLLAPSE: separate; FONT: 12px Helvetica; WHITE-SPACE: normal; LETTER-SPACING: normal; COLOR: rgb(0,0,0); WORD-SPACING: 0px">
<div style="WORD-WRAP: break-word"><span style="TEXT-TRANSFORM: none; TEXT-INDENT: 0px; BORDER-COLLAPSE: separate; FONT: 12px Helvetica; WHITE-SPACE: normal; LETTER-SPACING: normal; COLOR: rgb(0,0,0); WORD-SPACING: 0px">
<div style="WORD-WRAP: break-word"><span style="TEXT-TRANSFORM: none; TEXT-INDENT: 0px; BORDER-COLLAPSE: separate; FONT: 12px Helvetica; WHITE-SPACE: normal; LETTER-SPACING: normal; COLOR: rgb(0,0,0); WORD-SPACING: 0px"><span style="TEXT-TRANSFORM: none; TEXT-INDENT: 0px; BORDER-COLLAPSE: separate; FONT: 12px Helvetica; WHITE-SPACE: normal; LETTER-SPACING: normal; COLOR: rgb(0,0,0); WORD-SPACING: 0px">
<div style="WORD-WRAP: break-word"><span style="TEXT-TRANSFORM: none; TEXT-INDENT: 0px; BORDER-COLLAPSE: separate; FONT: 12px Helvetica; WHITE-SPACE: normal; LETTER-SPACING: normal; COLOR: rgb(0,0,0); WORD-SPACING: 0px">
<div style="WORD-WRAP: break-word">
<div><br><br></div>
<div>Keiran Raine</div>
<div>Senior Computer Biologist</div>
<div>The Cancer Genome Project</div>
<div>Ext: 2100</div>
<div><a href="mailto:kr2@sanger.ac.uk" target="_blank">kr2@sanger.ac.uk</a></div>
<div><br></div></div></span>The Wellcome Trust Sanger Institute is operated by Genome Research <br>Limited, a charity registered in England with number 1021457 and a <br>company registered in England with number 2742969, whose registered <br>
office is 215 Euston Road, London, NW1 2BE. </div></span><br></span><br></div></span></div></span></div><br></div>
<div>
<div class="im">
<div>On 17 Dec 2009, at 23:28, Dave Clements, GMOD Help Desk wrote:</div><br></div>
<blockquote type="cite">
<div class="im">
<div>Hi Keiran,<br></div>
<div><br></div>
<div>This definitely sounds like a bug to me. What specific version of GBrowse are you seeing this in?</div>
<div><br></div>
<div>I'll create a bug report for it.</div>
<div><br></div>
<div>Dave C</div><br></div>
<div class="gmail_quote">
<div class="im">On Thu, Dec 10, 2009 at 3:38 AM, Keiran Raine <span dir="ltr"><<a href="mailto:kr2@sanger.ac.uk" target="_blank">kr2@sanger.ac.uk</a>></span> wrote:<br></div>
<blockquote style="BORDER-LEFT: #ccc 1px solid; MARGIN: 0px 0px 0px 0.8ex; PADDING-LEFT: 1ex" class="gmail_quote">
<div style="WORD-WRAP: break-word">
<div class="im">Hi,
<div><br></div>
<div>When I use the bicolor_pivoit option on the box form of xyplot I am finding that the elements below the threshold, although the correct outline colour, have no fill:</div>
<div><br></div></div>
<div><span><Picture 1.png></span>
<div>
<div></div>
<div class="h5"><br>
<div><br></div>
<div>Has anyone else had this problem?</div>
<div><br></div>
<div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">[segmentXyplot]</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">feature = parent_segment</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">glyph = xyplot</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">graph_type<span style="WHITE-SPACE: pre"> </span></span></font><font size="3" face="Courier"><span style="FONT-SIZE: 12px"> = boxes</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">fgcolor = black</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">bicolor_pivot = 2</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">pos_color = blue</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">neg_color = red</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">database = GRC37_56</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">max_score </span></font><font size="3" face="Courier"><span style="FONT-SIZE: 12px"> = 5</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">min_score <span style="WHITE-SPACE: pre"> </span></span></font><font size="3" face="Courier"><span style="FONT-SIZE: 12px">= 0</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">height = 50</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">key = Segmentation</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">category = Copy number</span></font></div>
<div><font size="3" face="Courier"><span style="FONT-SIZE: 12px">label = 0</span></font></div></div>
<div><br></div>
<div><span style="FONT-SIZE: 12px">
<div style="WORD-WRAP: break-word"><span style="TEXT-TRANSFORM: none; TEXT-INDENT: 0px; BORDER-COLLAPSE: separate; FONT: 12px Helvetica; WHITE-SPACE: normal; LETTER-SPACING: normal; COLOR: rgb(0,0,0); WORD-SPACING: 0px">
<div style="WORD-WRAP: break-word"><span style="TEXT-TRANSFORM: none; TEXT-INDENT: 0px; BORDER-COLLAPSE: separate; FONT: 12px Helvetica; WHITE-SPACE: normal; LETTER-SPACING: normal; COLOR: rgb(0,0,0); WORD-SPACING: 0px"><span style="TEXT-TRANSFORM: none; TEXT-INDENT: 0px; BORDER-COLLAPSE: separate; FONT: 12px Helvetica; WHITE-SPACE: normal; LETTER-SPACING: normal; COLOR: rgb(0,0,0); WORD-SPACING: 0px">
<div style="WORD-WRAP: break-word"><span style="TEXT-TRANSFORM: none; TEXT-INDENT: 0px; BORDER-COLLAPSE: separate; FONT: 12px Helvetica; WHITE-SPACE: normal; LETTER-SPACING: normal; COLOR: rgb(0,0,0); WORD-SPACING: 0px">
<div style="WORD-WRAP: break-word">
<div>The perldoc for this element indicates that the fill should be taken from the neg_color.</div>
<div><br></div>
<div>Thanks,<br><br></div>
<div>Keiran Raine</div>
<div>Senior Computer Biologist</div>
<div>The Cancer Genome Project</div>
<div>Ext: 2100</div>
<div><a href="mailto:kr2@sanger.ac.uk" target="_blank">kr2@sanger.ac.uk</a></div>
<div><br></div></div></span>The Wellcome Trust Sanger Institute is operated by Genome Research <br>Limited, a charity registered in England with number 1021457 and a <br>company registered in England with number 2742969, whose registered <br>
office is 215 Euston Road, London, NW1 2BE. </div></span><br></span><br></div></span></div></span></div><br></div></div></div>
<div>
<div></div>
<div class="h5"><br>-- The Wellcome Trust Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a compa ny registered in England with number 2742969, whose registered office is 2 15 Euston Road, London, NW1 2BE. <br>
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<div>
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<div class="h5"><br>-- The Wellcome Trust Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a compa ny registered in England with number 2742969, whose registered office is 2 15 Euston Road, London, NW1 2BE. <br>
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