[gmod-cmap] [Gmod-help] Re: Bug with URI parameter collapse_feature

Fri Oct 24 08:47:42 EDT 2008

Sorry I'm late to the party.  I think you've figured out a solution but
I'll chime in anyway.

Based on the solution, I suspect that part of the problem is a
misunderstanding of the collapse_features option.  When on, it only
hides features that have the exact same image drawn on the exact same
spot (ie two marker that are so close together that their triangles
would be drawn at the same spot).

What you want is the feature_default_display.  Off the top of my head
(and Dave will have to confirm this), I think all you need to add is a
ft_DEFAULT=2 to the url, which will set all the feature types to always
display.  

You can also specify the feature_default_display value (display,
corr_only, ignore) in the configuration for each feature type.

Hope this helps,

Ben

On Wed, 2008-10-22 at 16:31 -0700, Dave Clements, GMOD Help Desk wrote:
> Hi Audrey,
> 
> I don't think the collapse_features setting is the problem.  That is
> used to collapse exactly overlapping features into a single
> icon/track.  The first URL is not displaying any features whatsoever,
> while the second is.
> 
> I have two questions here:
> 1. What fixes this today?  What needs to be in the URL to get the
> features to display?
> 2. What fixes this in the long run?  It seems reasonable to expect
> that clicking on redraw, without changing anything, should display the
> same page as before, and yet this is not happening.
> 
> Trial and error with your URL indicates the miniumum functioning URL is
> http://w3.pierroton.inra.fr/cgi-bin/cmap/viewer?ft_RAPD=2&ref_map_accs=105%3A106%3A110%3A99&data_source=CMAP_DEMO
> 
> The minumum SAFE URL is probably
> http://w3.pierroton.inra.fr/cgi-bin/cmap/viewer?ft_AFLP=2&ft_Usat=2&ft_qtl=2&ft_RAPD=2&ref_map_accs=105%3A106%3A110%3A99&data_source=CMAP_DEMO
> 
> If you can generate URLs like that then it will get you up and running.
> 
> In the longer term, I have no idea why redraw does not equal the
> initial draw.  Ken, do you have any ideas on this one?
> 
> Thanks,
> 
> Dave C
> GMOD Help Desk
> 
> On Wed, Oct 22, 2008 at 12:00 AM, Jacques-Gustave Audrey
> <audrey at pierroton.inra.fr> wrote:
> > Hi Dave,
> >
> > The "Collapse Overlapping Features" option displayed on the page is set
> > to no before clicking on the redraw button.
> > The changes of the url after clicking on it:
> > - before :
> > http://w3.pierroton.inra.fr/cgi-bin/cmap/viewer?ref_map_aids=105:106:110:99:;highlight=H3;data_source=CMAP_DEMO;label_features=all;collapse_features=0
> > - after :
> > http://w3.pierroton.inra.fr/cgi-bin/cmap/viewer?dotplot=0&eliminate_orphans=0&mapMenu=&featureMenu=1&corrMenu=&displayMenu=&advancedMenu=&map_start_0_110=0.00&map_start_0_99=0.00&map_start_0_105=0.00&map_start_0_106=0.00&map_stop_0_110=74.70&map_stop_0_99=75.40&map_stop_0_105=114.70&map_stop_0_106=57.90&map_mag_0_110=1&map_mag_0_99=1&map_mag_0_105=1&map_mag_0_106=1&map_in_menu_0_110=1&map_in_menu_0_99=1&map_in_menu_0_105=1&map_in_menu_0_106=1⊂=Redraw&highlight=H3&ft_AFLP=2&ft_Usat=2&ft_qtl=2&ft_RAPD=2&label_features=all&collapse_features=0&evidence_type_ANB=1&ets_ANB=0&aggregate=0&corrs_to_map=0&show_intraslot_corr=0&split_agg_ev=0&phrb=300&pixel_height=300&font_size=smallℑ_type=png&clean_view=0&hide_legend=0&scale_maps=1&omit_area_boxes=0&comp_menu_order=display_order&ignore_image_map_sanity=0&session_id=a0f7bcca4db039d38ce28b2b37d9eb20&step=1&session_mod=&ref_map_set_acc=0&ref_map_accs=105%3A106%3A110%3A99&ref_species_acc=&flip=&data_source=CMAP_DEMO
> >
> > I also tried to set the option collapse_features in the file.conf
> > attached to my data_source : line 239 in demo.conf. Nothing changes. The
> > features are collapsed.(The option in the page is also set to "no")
> >
> > Cheers,
> > Audrey
> >
> >
> > Le mardi 21 octobre 2008 à 16:46 -0700, Dave Clements, GMOD Help Desk a
> > écrit :
> >> Hi Audrey,
> >>
> >> I do not have an explanation for why this is happening.  I can't
> >> reproduce the problem by testing various URLs on the Gramene site.  is
> >> the "Collapse Overlapping Features:" option displayed on the page as
> >> yes or no (before the redraw button is hit?  Also, are the URLs
> >> different before and after clicking on redraw?
> >>
> >> Sorry this isn't more helpful,
> >>
> >> Dave C.
> >>
> >> On Sat, Oct 18, 2008 at 1:23 AM,  <audrey at pierroton.inra.fr> wrote:
> >> > Hi Dave,
> >> >
> >> > The URL looks like this :
> >> > http://myserver.fr/cgi-bin/cmap/viewer?ref_map_aids=170:171:160;data_source=CMAP_DEMO;collapse_features=0;label_features=all
> >> >
> >> > So the parameter "collapse_features" is set to 0, that means "no". But when
> >> > users use this URL, the map has all its features collapsed. They are obliged to
> >> > click on the "redraw" button to see the features. This seems a work too hard for
> >> > them (If you see what I mean)
> >> > Have you got an idea?
> >> >
> >> > Thanks,
> >> >
> >> > Audrey JG
> >> >
> >> > Selon "Dave Clements, GMOD Help Desk" <gmodhelp at googlemail.com>:
> >> >
> >> >> Hi Audrey,
> >> >>
> >> >> What exactly does the problem URL look like?
> >> >>
> >> >> Thanks,
> >> >>
> >> >> Dave C
> >> >> GMOD Help Desk
> >> >>
> >> >> On Fri, Oct 17, 2008 at 1:14 AM,  <audrey at pierroton.inra.fr> wrote:
> >> >> > Hello,
> >> >> >
> >> >> > I have linked CMap with my Web application using URI. But I have a
> >> >> unpleasant
> >> >> > bug for my users : when they clik on the link that redirect to a certain
> >> >> map in
> >> >> > CMap, all features of the map are collapse althought I have setted the URI
> >> >> > parameter collapse_feature to false (0). Users are obliged to click on the
> >> >> > "redraw" button to see all the features on the map.
> >> >> > >From this, if they try to collapse all the features after clicked on the
> >> >> > "redraw" button, the features don't collapses.
> >> >> >
> >> >> > Can somebody help me with this bug who's seems to bore my users?
> >> >> > (PS : I'm on CMap1.0)
> >> >> > Thanks for the help
> >> >> >
> >> >> > Audrey
> >> >> >
> >> >> >
> >> >> >
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> >> >>
> >> >>
> >> >>
> >> >> --
> >> >> Was this helpful?  Let us know at http://gmod.org/wiki/Help_Desk_Feedback
> >> >>
> >> >>
> >> >
> >> >
> >> >
> >>
> >>
> >>
> > --
> > Audrey Jacques-Gustave
> > UMR BOIGECO INRA Pierroton
> > audrey at pierroton.inra.fr
> >
> >
> 