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Last change
on this file was
7184,
checked in by westram, 15 years ago
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merges [7071] [7072] [7073] [7075] [7078] [7079] [7082] [7092] [7094] [7095] from refactor
- moved TOOLS/arb_count_chars.cxx directly into caller (NTREE)
- created helpfile for count chars
- added NTREE to tested units
- added unit test for NT_count_different_chars
- added two test-DBs containing some sequence data (NUC and AA)
- refactored NT_count_different_chars
- added flag to NT_count_different_chars to control status display
- added alias target 'savetest'
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File size:
1.0 KB
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| 1 | #Please insert up references in the next lines (line starts with keyword UP) |
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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 | #Please insert subtopic references (line starts with keyword SUB) |
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| 6 | #SUB subtopic.hlp |
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| 7 | |
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| 8 | # Hypertext links in helptext can be added like this: LINK{ref.hlp|http://add|bla@domain} |
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| 9 | |
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| 10 | #************* Title of helpfile !! and start of real helpfile ******** |
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| 11 | TITLE Count different chars/column |
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| 12 | |
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| 13 | OCCURRENCE ARB_NT/SAI/Other functions/Count different chars/column |
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| 14 | |
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| 15 | DESCRIPTION For each column in the alignment of the marked species, |
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| 16 | count the number of different base characters occurring. |
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| 17 | |
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| 18 | Write result as SAI 'COUNTED_CHARS' with the following |
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| 19 | interpretation: |
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| 20 | |
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| 21 | '0' empty column |
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| 22 | '1' only 1 base in this column (conserved column) |
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| 23 | '2'..'9' 2..9 different bases occurred |
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| 24 | 'A'..'Z' 10..25 different bases occurred |
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| 25 | |
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| 26 | NOTES None |
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| 27 | |
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| 28 | EXAMPLES None |
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| 29 | |
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| 30 | WARNINGS None |
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| 31 | |
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| 32 | BUGS No bugs known |
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