It's back! Same problem that got fixed in February - after a successful
upload to genome graphs, the 'data upload complete' page is missing any
button to proceed to viewing the data!
Looks like a fix got overwritten?
Here's the source from today - even less at the end than the previous bug
report (see below for that previous report please) - note that the last
<FORM> element is not being closed - nor is there a </body></html>
================source of page 19 june
2009=======================================
<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 3.2//EN">
<HTML>
<HEAD>
<META HTTP-EQUIV="Content-Type" CONTENT="text/html;CHARSET=iso-8859-1">
<META http-equiv="Content-Script-Type" content="text/javascript">
<META HTTP-EQUIV="Pragma" CONTENT="no-cache">
<META HTTP-EQUIV="Expires" CONTENT="-1">
<TITLE>
Data Upload Complete (67 bytes) </TITLE>
<LINK REL="STYLESHEET" HREF="../style/HGStyle.css" TYPE="text/css">
</HEAD>
<BODY BGCOLOR="#FFF9D2" LINK="#0000CC" VLINK="#330066" ALINK="#6600FF">
<style type='text/css'>
.trDrag {background-color:#EEEEEE;} .pale {background-color:#F8F8F8;}
.inputBox {border: 2px inset #CCCCCC;}
.greenRoof {border-top: 3px groove #008800;}
.greenBox {border: 5px outset #008800;}
.blueBox {border: 4px inset #000088;}
</style>
<A NAME="TOP"></A>
<TABLE BORDER=0 CELLPADDING=0 CELLSPACING=0 WIDTH="100%">
<!-- +++++++++++++++++++++ HOTLINKS BAR +++++++++++++++++++ -->
<TR><TD COLSPAN=3 HEIGHT=40 >
<table bgcolor="#000000" cellpadding="1" cellspacing="1" width="100%%"
height="27">
<tr bgcolor="#2636D1"><td valign="middle">
<table BORDER=0 CELLSPACING=0 CELLPADDING=0 bgcolor="#2636D1"
height="24"><TR>
<TD VALIGN="middle"><font color="#89A1DE">
<A HREF="../index.html?org=Human&db=hg18&hgsid=135739082" class="topbar">
Home</A>
<A HREF="../cgi-bin/hgGateway?org=Human&db=hg18&hgsid=135739082"
class="topbar">
Genomes</A>
<A
HREF="../cgi-bin/hgBlat?command=start&org=Human&db=hg18&hgsid=135739082"
class="topbar"> Blat</A>
<A
HREF="../cgi-bin/hgTables?org=Human&db=hg18&hgsid=135739082&hgta_doMainPage=1"
class="topbar">
Tables</A>
<A HREF="../cgi-bin/hgNear?org=Human&db=hg18&hgsid=135739082"
class="topbar">
Gene Sorter</A>
<A HREF="../cgi-bin/hgPcr?org=Human&db=hg18&hgsid=135739082"
class="topbar">
PCR</A>
<A
HREF="../cgi-bin/hgGenome?org=Human&db=hg18&hgsid=135739082&hgGenome_doPsOutput=on"
class="topbar">
PDF/PS</A>
<A
HREF="../cgi-bin/hgSession?org=Human&db=hg18&hgsid=135739082&hgS_doMainPage=1"
class="topbar">Session</A>
<A HREF="../FAQ/" class="topbar">
FAQ</A>
<A HREF="../goldenPath/help/hgGenomeHelp.html"
class="topbar">
Help</A>
</font></TD>
</TR></TABLE>
</TD></TR></TABLE>
</TD></TR>
<!-- +++++++++++++++++++++ CONTENT TABLES +++++++++++++++++++ -->
<TR><TD COLSPAN=3>
<!--outer table is for border purposes-->
<TABLE WIDTH="100%" BGCOLOR="#888888" BORDER="0" CELLSPACING="0"
CELLPADDING="1"><TR><TD>
<TABLE BGCOLOR="#FFFEE8" WIDTH="100%" BORDER="0" CELLSPACING="0"
CELLPADDING="0"><TR><TD>
<TABLE BGCOLOR="#D9E4F8" BACKGROUND="../images/hr.gif"
WIDTH="100%"><TR><TD>
<FONT SIZE="4"><b>
Data Upload Complete (67 bytes)</b></FONT></TD></TR></TABLE>
<TABLE BGCOLOR="#FFFEE8" WIDTH="100%" CELLPADDING=0><TR><TH
HEIGHT=10></TH></TR>
<TR><TD WIDTH=10> </TD><TD>
<FORM ACTION="../cgi-bin/hgGenome"><INPUT TYPE=HIDDEN NAME="hgsid"
VALUE="135739082">Loaded 15625346 elements from snp129 table for
mapping.<BR>
====================source ends here ============================
>
>
On Sun, Feb 8, 2009 at 12:06 PM, Ross Lazarus <
[email protected]> wrote:
> Help please! I've been using GG from Galaxy for about 2 years but today,
> when I went to make some nice pictures for my grant renewal (!), there
> appears to be a new problem.
>
> Using a Galaxy constructed url like this:
>
> http://genome.ucsc.edu/cgi-bin/hgGenome?db=hg18&hgGenome_dataSetName=Plink%20sample%20wga%20data%20case%20control%20_CaCo_gg.track&hgGenome_dataSetDescription=GalaxyGG_data&hgGenome_formatType=best%20guess&hgGenome_markerType=best%20guess&hgGenome_columnLabels=first%20row&hgGenome_maxVal=&hgGenome_labelVals=&hgGenome_maxGapToFill=25000000&hgGenome_uploadFile=http%3A%2F%2Fgalaxy.esphealth.org%2Fdisplay_as%3Fid%3D477%26display_app%3Ducsc&hgGenome_doSubmitUpload=submit
>
> the data appear to upload fine, but the page that tells me how many snp and
> where they mapped does not show the usual button to proceed to view the
> karyotype, and when I view the page source, it is clearly truncated in the
> middle of the form that usually shows that button - here's the source for
> the UCSC page I'm getting after uploading (apparently successfully!) - note
> where it ends - and no closing body or html tags:
>
>
> ====================source=========================================================
> <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 3.2//EN">
> <HTML>
> <HEAD>
>
>
> <META HTTP-EQUIV="Content-Type"
> CONTENT="text/html;CHARSET=iso-8859-1">
> <META http-equiv="Content-Script-Type" content="text/javascript">
> <META HTTP-EQUIV="Pragma" CONTENT="no-cache">
> <META HTTP-EQUIV="Expires" CONTENT="-1">
> <TITLE>
> Data Upload Complete (62 bytes) </TITLE>
> <LINK REL="STYLESHEET" HREF="../style/HGStyle.css" TYPE="text/css">
>
> </HEAD>
> <BODY BGCOLOR="#FFF9D2" LINK="#0000CC" VLINK="#330066" ALINK="#6600FF"><A
> NAME="TOP"></A>
>
> <TABLE BORDER=0 CELLPADDING=0 CELLSPACING=0 WIDTH="100%">
>
> <!-- +++++++++++++++++++++ HOTLINKS BAR +++++++++++++++++++ -->
> <TR><TD COLSPAN=3 HEIGHT=40 >
> <table bgcolor="#000000" cellpadding="1" cellspacing="1" width="100%%"
> height="27">
> <tr bgcolor="#2636D1"><td valign="middle">
> <table BORDER=0 CELLSPACING=0 CELLPADDING=0 bgcolor="#2636D1"
> height="24"><TR>
> <TD VALIGN="middle"><font color="#89A1DE">
>
> <A HREF="../index.html?org=Human&db=hg18&hgsid=1605988"
> class="topbar">
> Home</A>
> <A HREF="../cgi-bin/hgGateway?org=Human&db=hg18&hgsid=1605988"
> class="topbar">
> Genomes</A>
> <A
> HREF="../cgi-bin/hgBlat?command=start&org=Human&db=hg18&hgsid=1605988"
> class="topbar"> Blat</A>
> <A
> HREF="../cgi-bin/hgTables?org=Human&db=hg18&hgsid=1605988&hgta_doMainPage=1"
> class="topbar">
> Tables</A>
> <A HREF="../cgi-bin/hgNear?org=Human&db=hg18&hgsid=1605988"
> class="topbar">
> Gene Sorter</A>
> <A HREF="../cgi-bin/hgPcr?org=Human&db=hg18&hgsid=1605988"
> class="topbar">
> PCR</A>
> <A
> HREF="../cgi-bin/hgGenome?org=Human&db=hg18&hgsid=1605988&hgGenome_doPsOutput=on"
> class="topbar">
> PDF/PS</A>
> <A
> HREF="../cgi-bin/hgSession?org=Human&db=hg18&hgsid=1605988&hgS_doMainPage=1"
> class="topbar">Session</A>
> <A HREF="../FAQ/" class="topbar">
> FAQ</A>
>
> <A HREF="../goldenPath/help/hgGenomeHelp.html"
> class="topbar">
> Help</A>
> </font></TD>
> </TR></TABLE>
> </TD></TR></TABLE>
> </TD></TR>
>
>
> <!-- +++++++++++++++++++++ CONTENT TABLES +++++++++++++++++++ -->
> <TR><TD COLSPAN=3>
> <!--outer table is for border purposes-->
> <TABLE WIDTH="100%" BGCOLOR="#888888" BORDER="0" CELLSPACING="0"
> CELLPADDING="1"><TR><TD>
> <TABLE BGCOLOR="#FFFEE8" WIDTH="100%" BORDER="0" CELLSPACING="0"
> CELLPADDING="0"><TR><TD>
> <TABLE BGCOLOR="#D9E4F8" BACKGROUND="../images/hr.gif"
> WIDTH="100%"><TR><TD>
> <FONT SIZE="4"><b>
> Data Upload Complete (62 bytes)</b></FONT></TD></TR></TABLE>
> <TABLE BGCOLOR="#FFFEE8" WIDTH="100%" CELLPADDING=0><TR><TH
> HEIGHT=10></TH></TR>
> <TR><TD WIDTH=10> </TD><TD>
>
>
> <FORM ACTION="../cgi-bin/hgGenome"><INPUT TYPE=HIDDEN NAME="hgsid"
> VALUE="1605988">Loaded 15625346 elements from snp129 table for mapping.<BR>
> Mapped 226064 of 228694 (98.8%) of markers<BR>
>
> ====================source ends here ===================================
>
>
> -
--
Ross Lazarus MBBS MPH
Associate Professor, Department of Population Medicine; Director of
Bioinformatics, Channing Laboratory
181 Longwood Ave., Boston MA 02115, USA.
Tel: +617 525 2730 Fax: +617 525 0958
_______________________________________________
Genome maillist - [email protected]
https://lists.soe.ucsc.edu/mailman/listinfo/genome
