Hi to all,
On Tue, 23 Feb 2016, Andreas Tille wrote:
Kerstin, you can either download the staden packages from unstable from
here:
https://packages.debian.org/source/unstable/staden
and install manually on your Jessie system
I had a look at the requirements in the README.build file. Manual
install is not straightforward. Itcl, itk and iwidgets are not available
for jessie. Also configure complains about a missing io_lib. I search
the packages and found staden-io-lib-utils, but could not find a
staden-io_lib.so or something to which I could point with a path.
Libstaden is something different is it? All other dependencies seem to
be sufficient.
or you add unstable to your
/etc/apt/sources.list. ATTENTION: You need to adapt
/etc/apt/preferences to make sure you will not bump your whole system
to unstable!
The most "dangerous" and possibly destabilizing actions I did, were
installations of backports. I usually don't dare to touch sid. Probably
the install will also result in the missing itcl etc. being installed?
Will it work, if I restrict it as such?
Package: staden
Pin: release n=sid
Pin-Priority: 900
Best wishes,
Kerstin
On Mon, Feb 22, 2016 at 05:42:38PM +0000, James Bonfield wrote:
On Mon, Feb 22, 2016 at 04:34:13PM +0100, Andreas Tille wrote:
if I understand you correctly you are suggesting a further change. Could
you please confirm that this patch
https://anonscm.debian.org/viewvc/debian-med/trunk/packages/staden/trunk/debian/patches/cope_with_modern_windowmanager.patch?view=markup
Yes that's it.
The other change was an improvement to resizing.
This is long and tedious so feel free to ignore, but if you're curious
then here are the details. Typically window managers treat windows as
one of two flavours:
1) The program set the size, so it's permitted to change it again
itself.
2) The user resized the window, so the application request to resize
it will be ignored.
Tk wm geometry command allows you to programatically change the size
of window or with the blank size (wm geometry . {} {}) it'll reset the
window to case 1 - governed by the program rather than the user.
This is all very ICKY and it gets worse. Gap4's contig editor is
"courageously" setting the Y dimension itself based on how many rows
of sequences it wants to display. The X dimension can be controlled
by the user, but as the user increases the size in X, more sequences
can become visible causing the Y dimension to be resized. In the past
this caused massive fights between various parts of tcl/tk and window
managers, sometimes triggering event loops with oscillating window
dimensions. The workaround for this was to have a 1 second delay
between resizing the window and asking the program to recompute the
size.
That in turn though broke all modern window managers. Basically if
you resized quickly and let go it'd just snap back - you had to
resize, hold and wait for 1 sec, and then release. Bizantine... Try
hard as I may I couldn't recreate the strange oscillations so this
change basically pushes it back to how it used to be with instant
recomputation. It seems to work much better in general, but still
isn't perfect.
Perfection isn't possible when you start with the premise of X being
user controlled and Y being program controlled! With Gap5 fortunately
we had an attack of sanity and chose a more traditional strategy.
James
PS. Kerstin if you're still reading this, if set -x doesn't work then
just editing the first #! line to be "#!/bin/sh -x" (without the
quotes) should do the same thing, or simpler still typing in
sh -x `which pregap4`
--
James Bonfield (j...@sanger.ac.uk) | Hora aderat briligi. Nunc et Slythia Tova
| Plurima gyrabant gymbolitare vabo;
A Staden Package developer: | Et Borogovorum mimzebant undique formae,
https://sf.net/projects/staden/ | Momiferique omnes exgrabure Rathi.
--
The Wellcome Trust Sanger Institute is operated by Genome Research
Limited, a charity registered in England with number 1021457 and a
company registered in England with number 2742969, whose registered
office is 215 Euston Road, London, NW1 2BE.
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PD Dr. Kerstin Hoef-Emden Zülpicher Str. 47b
Universität zu Köln 50674 Köln
Biozentrum Köln (Cologne Biocenter) Germany
Botanisches Institut
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