Last change
on this file was
19532,
checked in by westram, 6 weeks ago
|
- reintegrates 'help' into 'trunk'
- tweak arb documentation:
- automatically link
- ticket references to arb
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
|
File size:
1.2 KB
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1 | # main topics: |
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2 | UP arb.hlp |
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3 | UP glossary.hlp |
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4 | UP treeadm.hlp |
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5 | |
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6 | # sub topics: |
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7 | #SUB subtopic.hlp |
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8 | |
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9 | # format described in ../help.readme |
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10 | |
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11 | |
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12 | TITLE Compare tree topologies |
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13 | |
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14 | OCCURRENCE ARB_NT/Tree/Compare topology |
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15 | |
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16 | DESCRIPTION Compares the topologies of the source and the destination tree. |
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17 | |
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18 | For each subtree of the destination tree, the best matching subtree in the source |
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19 | tree is searched. |
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20 | |
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21 | If any source subtree contains the same set of species (while disregarding the |
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22 | subtree topology itself), the destination subtree parent branch will not get |
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23 | any annotation. |
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24 | |
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25 | Otherwise the number of differences (i.e. the number of missing plus |
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26 | additional species) to the best matching source subtree is written to |
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27 | the destination subtree parent branch. |
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28 | |
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29 | NOTES To remove the generated annotations use LINK{trm_boot.hlp}. |
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30 | |
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31 | SECTION RELATED |
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32 | |
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33 | To compare taxonomies use LINK{compare_taxonomy.hlp}. |
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34 | |
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35 | WARNINGS Calling this function will delete existing bootstrap values from the destination tree. |
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36 | |
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37 | BUGS far too slow :-( |
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