Goodness me - thank you! That was quick! Yes, I'll try to test it as soon as I can.
On Mon, Feb 9, 2009 at 8:43 PM, Jennifer Jackson <[email protected]> wrote: > Hello Ross, > > We have isolated your problem and are in the process of implementing/testing > the fix. Meanwhile, you are welcome to use/test along with us at > http://genome-test.cse.ucsc.edu/ > > Please let us know if you have any problems or observations, > Jennifer Jackson > UCSC Genome Bioinformatics Group > > Ross Lazarus 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 Ambulatory Care and Prevention Director of Bioinformatics, Channing Laboratory 181 Longwood Ave., Boston MA 02115, USA. Tel: +617 525 2730 Fax: +617 525 0958 _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
