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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:
1021 bytes
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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 probedesign.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 Probe design (Expert) |
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| 13 | |
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| 14 | OCCURRENCE ARB_NT/Probes/Design Probes/EXPERT |
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| 15 | |
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| 16 | DESCRIPTION See LINK{bonds.hlp} for upper area. |
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| 17 | |
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| 18 | Define threshold for splitting melting domains: |
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| 19 | |
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| 20 | Type a value to the 'Threshold for Splitting' subwindow. |
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| 21 | This value is subtracted from the mean of all pairing |
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| 22 | values of the potential probe target hybrid. If the |
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| 23 | resulting value is lower than that of a particular |
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| 24 | mispairing, it is assumed that the remaining base paired |
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| 25 | stretches melt independently. The dissociation |
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| 26 | temperature of the whole hybrid is that of the more |
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| 27 | stable part of it. |
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| 28 | |
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| 29 | NOTES None |
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| 30 | |
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| 31 | EXAMPLES None |
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| 32 | |
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| 33 | WARNINGS The criteria used for probe target site ranking are based on |
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| 34 | experimental experience. However, optimum conditions have to be |
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| 35 | determined experimentally for the particular probe target |
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| 36 | hybrids. |
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| 37 | |
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| 38 | BUGS No bugs known |
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