source: branches/port5/GDEHELP/MENUS/dnamlrates.menu

Last change on this file was 9163, checked in by westram, 12 years ago
  • report suppressed failure when creating ARB_GDEmenus (first command of a pipe)
  • fix failure (temp)
  • Property svn:eol-style set to native
  • Property svn:keywords set to Author Date Id Revision
File size: 1.1 KB
Line 
1item:Positional Variability by Olsons dnamlrates (max 5000 Species, 8000 seqlength)
2seqtype: N
3itemmeta: O
4itemmethod:(GOTO_LOCAL_DIR ; \
5            arb_export_rates "" "M $RESIDUES" "T $TTRATIO" "U" $LENGTHS "F" | \
6                arb_convert_aln -GenBank in1 -phylip2 in1.ph; \
7            echo 1 >>in1.ph; \
8            arb_export_tree $TREE >>in1.ph; \
9            RUN_IN_WINDOW((cat in1.ph |arb_dnarates)); \
10            RM_LOCAL_FILES(in1) )&
11
12itemhelp:DNAml_rates.help
13
14arg:TREE
15argtype:tree
16arglabel:Base Tree
17argchoice:tree_main
18
19arg:RESIDUES
20argtype:text
21arglabel:Number of informative residues
22argtext:10
23
24arg:TTRATIO
25argtype:text
26arglabel:Transition/transversion ratio
27argtext:2.0
28
29arg:LENGTHS
30argtype:choice_menu
31arglabel:Use branchlengths?
32argchoice:Yes:"L"
33argchoice:No:
34
35// arg:USERRATES
36// argtype:text(20)
37// arglabel:User frequency rates
38// argtext:F
39
40// arg:USERRATES
41// argtype:choice_menu
42// arglabel:Choose frequency rates
43// argchoice:Calculate frequencies:F
44// argchoice:Estimate equal frequencies:F 0.25 0.25 0.25 0.25
45
46in:in1
47informat:genbank
48inmask:
49insave:
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