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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
-
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 | |
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| 5 | # sub topics: |
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| 6 | #SUB subtopic.hlp |
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| 7 | |
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| 8 | # format described in ../help.readme |
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| 9 | |
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| 10 | |
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| 11 | TITLE NOTES: universal dna |
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| 12 | |
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| 13 | OCCURRENCE ARB_IMPORT |
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| 14 | |
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| 15 | DESCRIPTION This input format reader should read every sequence format, |
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| 16 | but: |
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| 17 | |
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| 18 | - removes all other information |
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| 19 | - maybe adds additional words to the beginning |
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| 20 | or end of the sequence |
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| 21 | |
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| 22 | The final ID of the species will be 'spec#', where '#' is |
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| 23 | a numerical number. You should 'Synchronize species IDs' as soon |
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| 24 | as possible. |
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| 25 | |
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| 26 | INTERNAL |
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| 27 | |
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| 28 | This format scans the file for long strings containing more |
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| 29 | than fifty percent ACGTUN-. characters. All other words |
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| 30 | are deleted. |
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| 31 | |
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| 32 | NOTES There is no autodetection of this format. |
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| 33 | No additional information is read. |
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| 34 | No alignment is preserved. |
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| 35 | Subsequences with more then 30% ambiguities are removed. |
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