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Commit 2d8b3976 authored by zmap's avatar zmap
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new zmap release notes for 13 October 2008

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<!-- File automatically generated. Do not edit. --!>
<!--#set var="banner" value="ZMap Release Notes For '13 October 2008'" -->
<!--#include virtual="/perl/header" -->
<!--#set var="author" value="edgrif@sanger.ac.uk" -->
<!-- The release version, etc... --!>
<h5>Release Version: ZMap 0.1.55 </h5>
<h5>Release Date: 13 October 2008</h5>
<p>
(Last release was on 04/09/2008)
</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=25156">25156</a>, Resolved (Fri Oct 10 17:22:20 2008)
<p>Marked region adjusters</p>
<p>jgrg@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=70729">70729</a>, Resolved (Fri Oct 10 17:29:40 2008)
<p>marking of a zoomed in area broken</p>
<p>ib2@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=72829">72829</a>, Resolved (Fri Oct 10 17:31:52 2008)
<p>cannot open zmap because server connections died</p>
<p>lw2@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=75016">75016</a>, Resolved (Mon Sep 15 14:58:09 2008)
<p>zmap and lace crash</p>
<p>ib2@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=76121">76121</a>, Resolved (Thu Sep 04 16:51:03 2008)
<p>Unbump all features</p>
<p>mt4@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=80814">80814</a>, Resolved (Fri Oct 10 09:42:47 2008)
<p>locale settings break various bits of code</p>
<p>rds@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=80886">80886</a>, Resolved (Fri Oct 10 17:38:07 2008)
<p>zmap can't connect to server</p>
<p>gdr@sanger.ac.uk</p>
</li>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=83480">83480</a>, Resolved (Fri Oct 10 08:09:58 2008)
<p>consistent zmap (test_otterlace) crash when saving changed transcript</p>
<p>lw2@sanger.ac.uk</p>
</li>
</ul>
</fieldset><br />
<fieldset><legend>acedb</legend>
<ul>
<li>Ticket No.<a href="https://rt.sanger.ac.uk/rt/Ticket/Display.html?id=61970">61970</a>, Resolved (Wed Oct 01 15:56:59 2008)
<p>acedb panel query - different since debian upgrade</p>
<p>mt3@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/libcurlobject/libcurlobject.c: minor update, response code
from curl
</li>
<li> src/zmapUtils/: zmapConfigDir.c, zmapConfigDir_P.h: removed some
old code and added support for pending config (ini) changes.
</li>
<li> src/zmapUtils/zmapGUINotebook.c: zMapAssert change to help with
RT #79387
</li>
<li> src/zmapUtils/zmapGUITreeView.c: minor code reorganisation
</li>
<li> src/zmapWindow/: zmapWindow.c, zmapWindowColBump.c,
zmapWindowColConfig.c, zmapWindowDraw.c,
zmapWindowDrawFeatures.c, zmapWindowMenus.c,
zmapWindowNavigator.c, zmapWindowNavigatorMenus.c,
</li>
<li> typo -
Implement unbump all columns (RT #76121)
</li>
<li> doc/Release_notes/release_notes.2008_09_04.shtml: new zmap
release notes for 4 September 2008
</li>
<li> src/include/ZMap/zmapWebPages.h: update release notes file to
release_notes.2008_09_04.shtml
</li>
<li> doc/Release_notes/LAST_RELEASE_DATE.txt: update last release
notes to 04/09/2008
</li>
<li> src/zmapUtils/zmapUtils_P.h:
/var/tmp/zmap.12944/ZMap/scripts/versioner run by zmap
</li>
<li> doc/Release_notes/LAST_RELEASE_DATE.txt: Stepping back to get all
release notes after dodgy build...
</li>
<li> doc/Release_notes/release_notes.2008_09_04.shtml: new zmap
release notes for 4 September 2008
</li>
<li> doc/Release_notes/LAST_RELEASE_DATE.txt: update last release
notes to 04/09/2008
</li>
<li> src/zmapUtils/zmapUtils_P.h:
/var/tmp/zmap.28205/ZMap/scripts/versioner run by zmap
</li>
<li> src/include/ZMap/zmapConfigStrings.h: simple #define addition for
locale string
</li>
<li> src/zmapApp/zmapApp_P.h: simple addition to struct for locale
</li>
<li> src/zmapApp/zmapAppwindow.c: setup locale in an attempt to fix
problems with parsing strings when locale is not C or POSIX...
See RT ticket #80814 for details. It's possible we'll need to
change this as I foresee a few issues appearing
</li>
<li> src/include/ZMap/zmapStyle.h: add 3 frame variations. rationalise
bump names. add calls to set strand, frame.
</li>
<li> src/zmapFeature/zmapFeature.c: change to new bump name.
</li>
<li> src/zmapFeature/zmapFeatureTypes.c: add new strand/frame
functions for setting/printing. Parse bump string better. Add
frame stuff to inherited styles.
</li>
<li> src/zmapFeature/zmapStyle.c: Add functions to check styles are
drawable and make them drawable. Fix bump modes. Add gobject
frame/strand stuff.
</li>
<li> src/zmapFeature/zmapStyle_I.h: add new frame/strand state.
</li>
<li> src/zmapServer/: zmapServer.c, zmapServer.h: add new
style/feature set calls to interface.
</li>
<li> src/zmapServer/zmapServerProtocolHandler.c: Add code to check
feature sets and styles
</li>
<li> src/zmapServer/zmapServerPrototype.h: add new prototypes for
getting feature sets and styles.
</li>
<li> src/zmapServer/acedb/acedbServer.c: Add new calls to support
using methods as feature sets and having separate style objects.
parse new frame tags. parse bump stuff better. Sort out column
group stuff.
</li>
<li> src/zmapServer/acedb/acedbServer_P.h: bump up server version. Add
new child tag.
</li>
<li> src/zmapServer/: das/dasServer.c, file/fileServer.c: add new
feature set calls.
</li>
<li> src/zmapView/zmapView.c: don't merge navigator style names into
main style list, all predefined now.
</li>
<li> src/zmapWindow/zmapWindowColBump.c: add rationalised bump names.
</li>
<li> src/zmapWindow/zmapWindowColOrder.c: use new frame calls.
</li>
<li> src/zmapWindow/zmapWindowDraw.c: fix bug in 3 frame state
setting, add func to properly set column state according to mag.
etc. Add 3 frame handling funcs using new start/frame states.
</li>
<li> src/zmapWindow/zmapWindowDrawFeatures.c: add new column
visibility state call.
</li>
<li> src/zmapWindow/zmapWindowItem.c: fix small logic bug causing seg.
violation.
</li>
<li> src/zmapWindow/zmapWindowMenus.c: once again try to rationalise
col. bumping.
</li>
<li> src/zmapWindow/zmapWindow_P.h: add new func. prototypes.
</li>
<li> src/zmapWindow/zmapWindowUtils.c: remove over zealous assert.
</li>
<li> doc/ZMAP_LACE_XML.README: add column type info.
</li>
<li> src/zmapFeature/zmapFeatureTypes.c: minor change to style
printing code.
</li>
<li> src/include/ZMap/zmapConfigStrings.h: remove acedb specific
def...put in acedb code.
</li>
<li> src/zmapServer/acedb/: acedbServer.c, acedbServer_P.h: make
styles the default, not methods and move method keyword for
source into here.
</li>
<li> src/zmapView/zmapView.c: remove uneeded use of config style
keyword.
</li>
<li> src/zmapServer/acedb/acedbServer.c: forgot to change def name for
use methods flag.
</li>
<li> src/zmapServer/zmapServerProtocolHandler.c: fix bad bit of error
handling giving faulty error message.
</li>
<li> src/zmapServer/acedb/acedbServer.c: fix stupid debug messages and
also defaulting of use_methods....
</li>
<li> src/zmapFeature/zmapFeatureTypes.c: remove debug statement.
</li>
<li> src/include/ZMap/zmapConfigStrings.h: More config strings
</li>
<li> src/include/ZMap/zmapThreads.h: remove (now) unused define
</li>
<li> src/: zmapApp/zmapAppwindow.c, zmapConfig/zmapConfig.c,
zmapFeature/zmapFeatureTypes.c, zmapUtils/zmapLogging.c,
zmapUtils/zmapUtilsConfig.c: move to [ini] style config files
</li>
<li> src/: zmapView/zmapView.c, zmapView/zmapViewCallBlixem.c,
zmapView/zmapView_P.h, zmapWindow/zmapWindowDrawFeatures.c: move
to [ini] style config files
</li>
<li> src/zmapWindow/zmapWindow.c: move to [ini] style config files +
busy cursor
</li>
<li> src/zmapWindow/zmapWindowItem.c: fix I forgot to put in ages
ago...
</li>
<li> src/zmapWindow/: zmapWindowPreferences.c, zmapWindowPrint.c: move
to [ini] style config files
</li>
<li> src/: include/ZMap/zmapConfigIni.h,
include/ZMap/zmapConfigLoader.h,
include/ZMap/zmapConfigStanzaStructs.h, include/Makefile.am,
zmapConfig/zmapConfigIni.c, lib/Makefile.am: move to [ini] style
config files
</li>
<li> src/: include/Makefile.am, zmapUtils/zmapConfigLoader.c: move to
[ini] style config files
</li>
<li> src/: zmapView/zmapView.c, include/ZMap/zmapConfigIni.h: move to
[ini] style config files
</li>
<li> src/zmapServer/acedb/acedbServer.c: move to [ini] style config
files
</li>
<li> src/zmapUtils/zmapConfigLoader.c: move to [ini] style config
files
</li>
<li> src/: zmapView/zmapView.c, include/ZMap/zmapConfigLoader.h: free
what we no longer need
</li>
<li> src/zmapWindow/zmapWindowItemFactory.c: further exclusion of
zmapasserts to stop crashing... see rt ticket # 79058
</li>
<li> src/zmapWindow/zmapWindow.c: fix stupid copy/paste error... hmm I
think I need to rethink the interface...
</li>
<li> doc/Project_notes/Strategy_Autumn_2008.shtml: first version
</li>
<li> src/zmapWindow/zmapWindowFeatureList.c: Move from storing the
feature for each row to storing a serialised version of it.
This way we fix the issue in RT ticket #83480, although the
list shown is incomplete it does not result in a crash.
</li>
<li> src/zmapWindow/zmapWindowFeatureList.h: Move from storing the
feature for each row to storing a serialised version of it.
This way we fix the issue in RT ticket #83480, although the
list shown is incomplete it does not result in a crash.
-Added some documentation too.
</li>
<li> src/zmapWindow/zmapWindowList.c: - runing of old/broken code -
fix the issue in RT ticket #83480,
</li>
<li> src/include/ZMap/zmapGUITreeView.h: brief documentation
</li>
<li> src/zmapConfig/zmapConfigIni.c: protect against glib
warning/empty strings
</li>
<li> src/zmapUtils/zmapGUITreeView.c: attempt to protect against gtk
warnings "failed to convert to text from pointer"
</li>
<li> src/zmapUtils/zmapConfigLoader.c: include logging group
</li>
<li> src/: zmapConfig/zmapConfigIni.c, include/ZMap/zmapConfigDir.h:
compiler warning
</li>
<li> src/zmapServer/acedb/acedbServer.c: stop an endless loop
</li>
<li> src/zmapConfig/zmapConfigIni.c: get the correct order for
overwriting to work
</li>
<li> src/zmapWindow/zmapWindowList.c: Add context menu code for rows.
context menu includes visit url item when feature has url.
<!-- --- 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> w4/command.c: fix uninitialised variable (status) error.
</li>
<li> w6/smap.c: fix small bug in smapdump for when root has no parent.
</li>
<li> w3/gifacemain.c, w3/tacemain.c, w3/taqlmain.c, w3/xacemain.c,
wsocket/serverace.c: fix locale bug, we only handle straight C
</li>
<li> w3rdparty/libpfetch/: Makefile, libcurlobject.c, libcurlobject.h,
libcurlobject_I.h, libpfetch-cmarshal.c, libpfetch-cmarshal.h,
libpfetch-cmarshal.list, libpfetch-utils.c, libpfetch.c,
libpfetch.h, libpfetch_I.h, libpfetch_P.h: initial version of
pfetch package.
</li>
<li> w3rdparty/libpfetch/.deps/: libcurlobject_a-libcurlobject.Po,
libpfetch_a-libpfetch-cmarshal.Po,
libpfetch_a-libpfetch-utils.Po, libpfetch_a-libpfetch.Po: compile
dependencies
</li>
<li> w3rdparty/libpfetch/: libpfetch-cmarshal.c, libpfetch-cmarshal.h:
remove libpfetch-cmarshal.c libpfetch-cmarshal.h, they are
generated by the make.
</li>
<li> w3rdparty/libpfetch/: Makefile, README: first versions.
</li>
<li> w4/: commandmenu.c, command.c: add neighbours command to mirror
find neighbours in keyset window.
</li>
<li> w3rdparty/libpfetch/Makefile: fix up to use acedb DEFs files to
build on different machines.
</li>
<li> w4/command.c: remove duplicate objects found message.
</li>
<li> wh/command.h: add a find neighbours command.
</li>
<li> wmake/DARWIN_4_DEF: fix up ar command, compiler commands.
</li>
<li> wmake/DARWIN_UNIVERSAL_DEF: fix up universal binary options, ar
options.
</li>
<li> wmake/: LINUX_4_DEF, LINUX_64_DEF: fix up pkgconfig options, ar
options.
</li>
<li> wmake/makefile: remove unsupported code from all target,
rationalise defines so we only build main progs.
</li>
<li> wmake/truemake: fix ar options, fix pfetch defines.
</li>
<li> w6/smap_.h: add debug flag to allow per smap setting from
debugger.
</li>
<li> w6/smap.c: add error handling to smapaddnode(), used to silently
fail.
</li>
<li> wmake/makefile: provide standard build for acedb build system.
</li>
<li> wnq/aceversion.c: update to 47
<!-- --- End editing ACeDB changes here... --- --!>
</li>
</ul>
</fieldset>
<br />
<!--#include virtual="/perl/footer" -->
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