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Commit 41e85bb6 authored by zmap's avatar zmap
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new zmap release notes for 25 January 2010

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<!-- File automatically generated. Do not edit. --!>
<!--#set var="banner" value="ZMap Release Notes For '25 January 2010'" -->
<!--#include virtual="/perl/header" -->
<!--#set var="author" value="edgrif@sanger.ac.uk" -->
<!-- The release version, etc... --!>
<h5>Release Version: ZMap 0.1.81 </h5>
<h5>Release Date: 25 January 2010</h5>
<p>
(Last release was on 20/01/2010)
</p>
<h5>Request Tracker Tickets Resolved</h5>
<br />
<!-- Now the resolved tickets... --!>
<!-- Finished getting the resolved request tracker tickets --!>
<fieldset><legend>zmap</legend>
<ul>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=117570">117570</a>, Resolved (Thu Jan 21 10:23:38 2010)
<p>Zmap Styles - Transcripts drawn on top of each other</p>
<p>jgrg@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=124064">124064</a>, Resolved (Mon Jan 25 13:59:55 2010)
<p>long delay before new zmap is active</p>
<p>jgrg@sanger.ac.uk, lw2@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=132505">132505</a>, Resolved (Wed Jan 20 17:23:20 2010)
<p>Overlap bump mode could still be improved</p>
<p>jgrg@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=152345">152345</a>, Resolved (Wed Jan 20 11:42:30 2010)
<p>doxygen docs not getting to dev. website.</p>
<p>mh17@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=153627">153627</a>, Resolved (Wed Jan 20 14:53:54 2010)
<p>zmap crash on 'configure colum'</p>
<p>mh17@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=154021">154021</a>, Resolved (Thu Jan 21 09:58:45 2010)
<p>Spurious glyphs being shown in zmap</p>
<p>mpk@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=154117">154117</a>, Resolved (Thu Jan 21 14:59:25 2010)
<p>RT links broken in zmap</p>
<p>edgrif@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=155207">155207</a>, Resolved (Thu Jan 21 13:37:14 2010)
<p>Generating postscipt screenshots</p>
<p>gs6@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=155794">155794</a>, Resolved (Fri Jan 22 09:49:09 2010)
<p>splitting a window in a marked region using V-Split in Zmap</p>
<p>gm5@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=155812">155812</a>, Resolved (Wed Jan 20 10:45:55 2010)
<p>testotterlace zmap crashes when exposing locator panel</p>
<p>lw2@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=155925">155925</a>, Resolved (Wed Jan 20 10:32:38 2010)
<p>unused column in feature show window</p>
<p>lw2@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=156117">156117</a>, Resolved (Wed Jan 20 10:55:49 2010)
<p>crashed on bumping ens_cdna</p>
<p>gdr@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=156197">156197</a>, Resolved (Wed Jan 20 15:38:14 2010)
<p>R-click then 'Unbump all Columns' does the opposite</p>
<p>dml@sanger.ac.uk, mh17@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=156301">156301</a>, Resolved (Thu Jan 21 15:07:29 2010)
<p>copy / paste DNA</p>
<p>jm12@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=156782">156782</a>, Resolved (Mon Jan 25 15:39:49 2010)
<p>Invoking the browser on a feature URL hangs Zmap</p>
<p>jh13@sanger.ac.uk</p>
</li>
</ul>
</fieldset><br />
<!-- End of tickets --!>
<fieldset>
<legend>ZMap Changes/Fixes [from cvs]</legend>
<ul>
<li><!-- --- Start editing ZMap changes here... --- --!>
<a href="http://cvs.internal.sanger.ac.uk/cgi-bin/viewcvs.cgi/ZMap/?root=zmap">Browse CVS</a>
</li>
<li> src/zmapWindow/items/zmapWindowContainerFeatureSet.c: Silly
uninitialized variable bug. Better now
</li>
<li> src/zmapWindow/: zmapWindowColBump.c, zmapWindowMenus.c,
zmapWindow_P.h: made unbump all columns work as exepcted
</li>
<li> doc/Release_notes/release_notes.2010_01_20.shtml: new zmap
release notes for 20 January 2010
</li>
<li> src/include/ZMap/zmapWebPages.h: update release notes file to
release_notes.2010_01_20.shtml
</li>
<li> doc/Release_notes/LAST_RELEASE_DATE.txt: update last release
notes to 20/01/2010
</li>
<li> src/zmapUtils/zmapUtils_P.h:
/var/tmp/zmap.23193/ZMap/scripts/versioner run by zmap
</li>
<li> src/zmapWindow/zmapWindowColBump.c: bump overlap made more
compact re RT132505
</li>
<li> src/zmapWindow/zmapWindowColBump.c: fixed ovbious inefficiency
previous overlap bump fix
</li>
<li> src/zmapWindow/zmapWindowState.c: mod to MarkIsSet warning to
prevent further tickets
</li>
<li> src/zmapFeature/zmapStyle.c: fixed wrong sense < operator error
</li>
<li> src/zmapWindow/: zmapWindowDump.c, zmapWindow_P.h,
items/zmapWindowLongItem.c: screenshot to PDF now runs
</li>
<li> src/zmapUtils/zmapWebBrowser.c: fixed RT122984 and further
securitised URLs by patching out shell chars that run extra
programs
</li>
<li> src/zmapWindow/: zmapWindow.c, zmapWindowFeature.c,
zmapWindowItem.c, zmapWindowList.c, zmapWindow_P.h: fix dna
pasting, needed change to updatepanel func.
</li>
<li> src/zmapWindow/zmapWindowMark_P.h: window mark header file
</li>
<li> src/zmapWindow/: zmapWindow.c, zmapWindowColConfig.c,
zmapWindowDrawFeatures.c, zmapWindowItem.c, zmapWindowMark.c,
zmapWindow_P.h, items/zmapWindowContainerBlock.c,
items/zmapWindowContainerBlock.h,
items/zmapWindowContainerGroup.c,
items/zmapWindowContainerUtils.c: Fix for the eternal mark
restore issues
</li>
<li> src/zmapWindow/zmapWindow.c: removing calls to
zmapWindowWorld2Seq
</li>
<li> src/include/ZMap/zmapStyle.h: improve name of one of 3 frame
options.
</li>
<li> src/zmapGFF/zmapGFF2parser.c: add in some missing checking for
bad source names etc.
</li>
<li> src/zmapServer/acedb/acedbServer.c: fix changed name for 3 frame
option.
</li>
<li> src/zmapView/zmapViewRemoteReceive.c: fix trivial compiler
warning.
</li>
<li> src/zmapWindow/: zmapWindow.c, zmapWindowColBump.c,
zmapWindowDNA.c: replace old get feature call with new.
</li>
<li> src/zmapWindow/zmapWindowDraw.c: remove double call to
colorder/reposition ! fix changed 3 frame name.
</li>
<li> src/zmapWindow/zmapWindowDrawFeatures.c: fix bug in showing 3
frame cols.
</li>
<li> src/zmapWindow/: zmapWindowFeature.c, zmapWindowItem.c,
zmapWindowItemText.c, zmapWindowMark.c, zmapWindowMenus.c:
replace of get feature call with new item version.
</li>
<li> src/zmapWindow/: zmapWindowState.c, zmapWindowUtils.c: replace of
get feature call with new item version.
</li>
<li> src/zmapWindow/items/: zmapWindowCanvasItem.c,
zmapWindowCanvasItem.h: add new version of get features func,
works on sub items now.
</li>
<li> src/zmapWindow/items/: zmapWindowContainerBlock.c,
zmapWindowContainerFeatureSet.c: fix trivial cast bug.
</li>
<li> src/: include/ZMap/zmapView.h, include/ZMap/zmapWindow.h,
zmapControl/zmapControlWindowMenubar.c, zmapView/zmapView.c,
zmapWindow/zmapWindow.c, zmapWindow/zmapWindowDrawFeatures.c,
zmapWindow/zmapWindowItemFactory.c, zmapWindow/zmapWindowStats.c,
zmapWindow/zmapWindow_P.h,
zmapWindow/items/zmapWindowContainerFeatureSet.c,
zmapWindow/items/zmapWindowContainerUtils_P.h: restored session
statistics, needs review
</li>
<li> src/zmapWindow/zmapWindowDrawFeatures.c: remove needless call to
FullReposition, as RequestReposition is called by it, and again
only a few lines later in this function!
</li>
<li> src/zmapWindow/zmapWindowNavigator.c: Only request a reposition
if were exposed. i.e. no expose handler
</li>
<li> src/zmapWindow/items/zmapWindowContainerContext.c: Fixes, slow
response to first click on the canvas. Why is it that bugs like
this are the smallest diffs?
</li>
<li> src/zmapServer/pipe/pipeServer.c: sanitised some type cast code
for 63 bit systems
</li>
<li> src/: zmapFeature/zmapFeature.c, zmapWindow/zmapWindowDraw.c,
zmapWindow/zmapWindowStats.c: added assembly_path to stats and
also addFeatureModeCB ( )
</li>
<li> src/zmapWindow/zmapWindowStats.c: fix bug causing crash in stats
code.
</li>
<li> src/zmapFeature/zmapFeatureTypes.c: defaults for 3 frame wrong so
fixed them.
</li>
<li> src/zmapWindow/zmapWindowColBump.c: partial fix bumping for 3
frame translation, columns remain too big on zoom.
</li>
<li> src/zmapUtils/zmapWebBrowser.c: really fixed query urls by
quoting the URL with backslash-quotes
</li>
<li> src/zmapUtils/zmapWebBrowser.c: fixed double free in web broswer
interface
<!-- --- End editing ZMap changes here... --- --!>
</li>
</ul>
</fieldset>
<br />
<fieldset>
<legend>Aceb Changes/Fixes [from cvs]</legend>
<ul>
<li><!-- --- Start editing ACeDB changes here... --- --!>
<a href="http://cvs.internal.sanger.ac.uk/cgi-bin/viewcvs.cgi/acedb/?root=acedb">Browse CVS</a>
</li>
<li> w7/smapconvert.c: add debug stuff to converthomol().
</li>
<li> w6/smap.c: fix stupid bug in sMapComposeMaps...got strand wrong
for 1 base pair align blocks.
</li>
<li> w6/smap.c: fix bad bug in sMapComposeMaps() which got wrong
strand when first submatch only 1 base long.
<!-- --- End editing ACeDB changes here... --- --!>
</li>
</ul>
</fieldset>
<br />
<!--#include virtual="/perl/footer" -->
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