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Last change
on this file was
19532,
checked in by westram, 4 months ago
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- 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
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Property svn:eol-style set to
native
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Property svn:keywords set to
Author Date Id Revision
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File size:
1.1 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 dist.hlp |
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| 5 | |
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| 6 | # sub topics: |
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| 7 | SUB consense_algo.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 NJ bootstrap |
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| 13 | |
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| 14 | OCCURRENCE ARB_DIST |
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| 15 | |
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| 16 | DESCRIPTION Calculates a number of trees (specified at 'No. of trees') |
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| 17 | and shows the consensus tree. |
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| 18 | |
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| 19 | Each tree is based on a random set of columns. If you use a filter |
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| 20 | only the filtered columns will be picked randomly. |
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| 21 | |
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| 22 | The inner branches in that tree are marked by a percentage value, |
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| 23 | showing in how many of the bootstrapped trees that particular |
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| 24 | branch occurred. |
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| 25 | |
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| 26 | The higher that percentage is (best > 99%), the more likely that |
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| 27 | the branch is correct. |
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| 28 | |
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| 29 | Percentages above 99% are not displayed. |
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| 30 | |
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| 31 | NOTES If you specify '0' at 'No. of trees', the calculation won't stop. |
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| 32 | You may stop it by pressing 'KILL'. |
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| 33 | When you're then asked whether to wait or kill (after pressing the kill button), |
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| 34 | press 'WAIT' - or you'll kill the complete calculation. |
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| 35 | |
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| 36 | WARNINGS None. |
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| 37 | |
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| 38 | BUGS None. |
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