source: trunk/GDEHELP/MENUS/desoete.menu

Last change on this file was 16469, checked in by westram, 8 years ago
  • reintegrates 'textedit' into 'trunk'
    • fixes #586
      • editor now always started asynchronously
      • uses inotify to track file changes
    • also use inotify to track directory updates (in order to update file selections when needed)
      (./) by [16515] ff.; merged by [16551]
  • adds: log:branches/textedit@16448:16468
  • Property svn:eol-style set to native
  • Property svn:keywords set to Author Date Id Revision
File size: 1.1 KB
Line 
1item:DeSoete Tree fit
2itemmeta: S
3seqtype:*
4itemmethod: GOTO_LOCAL_DIR; \
5            (RUN_IN_WINDOW((arb_readseq -a -f8 TmpInputFile >fasta.flat;\
6                            count -t $CORR fasta.flat >count.out;\
7                            lsadt <count.out -seed $SEED -init $INIT -empty -99.9 > outtree;\
8                            $DISPLAY_FUNC));\
9            RM_LOCAL_FILES(TmpInputFile fasta.flat count.out outtree) )&
10itemhelp:lsadt.help
11
12in:TmpInputFile
13informat:genbank
14insave:
15
16arg:CORR
17arglabel:Dist. correction?
18argtype:choice_menu
19argchoice:Olsen:-c=olsen
20argchoice:Jukes/Cantor:-c=jukes
21argchoice:None:-c=none
22
23arg:INIT
24arglabel:Parameter estimate
25argtype:choice_menu
26argchoice:uniformly distributed random numbers:1
27argchoice:error-perturbed data:2
28argchoice:original distance data from input matrix:3
29
30arg:SEED
31argtype:slider
32arglabel:Random nr. seed
33argmin:0
34argmax:65535
35argvalue:12345
36
37arg:DISPLAY_FUNC
38argtype:choice_menu
39arglabel:View tree using
40argchoice:ARB ('tree_desoete'):arb_read_tree tree_desoete_$$ outtree "PRG=DeSoete CORR=$CORR FILTER=$FILTER"
41argchoice:TextEdit:arb_textedit outtree
42argchoice:Treetool:treetool outtree
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