[Debian-med-packaging] Bug#815176: staden: Gap4 contig editor does not show sequences

[James Bonfield]

On Sat, Feb 20, 2016 at 08:33:48AM +0100, Andreas Tille wrote:
> On Fri, Feb 19, 2016 at 06:56:36PM +0100, Kerstin Hoef-Emden wrote:
> > Package: staden
> > Version: 2.0.0+b10-1.1
> > Severity: grave
> > Justification: renders package unusable
> > 
> > Dear Maintainer,
> > 
> > 
> > I loaded pregap-converted *.exp sequences into gap4 to do an assembly. The
> > assembly worked out, but I cannot open the contig editor for proofreading.
> > More correctly described: It actually opens, but only the upper window bar
> > is visible, neither sequences nor trace files are displayed. Since no
> > information on this problem shows up in the log files of gap4, I have got no
> > idea concerning the nature of the problem. Perhaps something connected to
> > the graphical surface?

Please try commenting out (#) the "wm resizable $w 1 0" line of the
contig_editor procedure (approx line 111) in
/usr/share/staden/tcl/gap/contig_editor.tcl.

(It may not be /usr/share - Andreas, where does Debian by default
install Gap4?)

This disables the attempt to inform the window manager that the X
dimension is under user control and Y dimension under the program
control.

I don't know if this is sufficient as testing this requires checking
every window manager out there and see which options they honour, but
it cures the problem for me with xfwm4.

James

-- 
James Bonfield (jkb at 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. 


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