source: branches/lib/HELP_SOURCE/source/color.hlp

Last change on this file was 19532, checked in by westram, 4 months ago
  • reintegrates 'help' into 'trunk'
    • tweak arb documentation:
      • automatically link
        • ticket references to arb bug tracker (only affects html version).
        • found URLs.
      • page titles
        • warn about long titles.
        • introduce SUBTITLEs (automatically triggered by multi-line titles in source files).
        • increase allowed length (limited by subwindow width).
      • cleanup header sections in all helpfiles.
      • fix and/or update several help files.
      • document syntax of help sources.
      • build issues:
        • when xml validation fails, next build no longer uses invalid xml ⇒ keeps failing.
        • remove output files on error (including files below ARBHOME/lib).
        • pipe output through logs to ensure proper wrapping in Entering/Leaving lines.
    • moves Tree admin + NDS menu entries to top of menu
  • adds: log:branches/help@18783:19531
  • Property svn:eol-style set to native
  • Property svn:keywords set to Author Date Id Revision
File size: 1.8 KB
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1#       main topics:
2UP      arb.hlp
3UP      glossary.hlp
4
5#       sub topics:
6SUB     set_color_of_listed.hlp
7SUB     colorize.hlp
8SUB     color_props_groups.hlp
9SUB     tree_group.hlp
10SUB     mark.hlp
11
12# format described in ../help.readme
13
14
15TITLE           What are color groups?
16
17DESCRIPTION     Color groups are groups of species (or other items like
18                genes or experiments).
19
20                Every species can only belong to ONE color group.
21                That information is stored in the database entry 'ARB_color'.
22
23SECTION         Assign species to color groups
24
25                  * marks <-> colors (see LINK{colorize.hlp})
26                  * search result -> colors (see LINK{set_color_of_listed.hlp})
27
28
29SECTION         Display of color groups
30
31                  Colors of colorized items are shown at several places:
32
33                    * in the tree display, species information is drawn using
34                      the (species) item color.
35                      Branches/groups also use that color, if all species below
36                      belong to the same color group.
37
38                    * in ARB_EDIT4 the sequence area background is drawn
39                      using the (species) item color
40                      (see also LINK{e4_background_priority.hlp}).
41
42                    * in LINK{gene_map.hlp} the genes are displayed in the (gene) item color.
43
44
45                The display colors of color groups can be customized in using
46                LINK{color_props_groups.hlp}.
47
48SECTION         Operations available for color groups:
49
50                  * unfold tree according to color groups (see LINK{tree_group.hlp})
51                  * mark items (e.g. species) according to color groups (see LINK{colorize.hlp})
52
53NOTES           None
54
55EXAMPLES        None
56
57WARNINGS        None
58
59BUGS            No bugs known
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