malacology/TNT_Script
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fix: select latest tree via tchoose/

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kuoi 2023-07-19 19:47:57 +08:00
parent 62937d5d65
commit 8b165c649d
1 changed files with 31 additions and 3 deletions
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34
guoyi.run
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@ -97,9 +97,9 @@ hold 10000;
/*Search trees*/ /*Search trees*/
xpiwe(*; xpiwe(*;
mult=replic 1000 tbr hold 100; mult=replic 1000 tbr hold 1000;
sect: slack 1000; sect: slack 1000;
xmult=hit 1000 noupdate replic 10 drift 10 ratchet 10 fuse 10 hold 1 keepall; xmult=hit 1000 noupdate replications 20 drift 10 ratchet 10 fuse 10 hold 1 keepall;
piwe&; piwe&;
/*Export trees*/ /*Export trees*/
@ -107,12 +107,24 @@ export= trees.tre;
taxname-; taxname-;
export= trees_no.tre; export= trees_no.tre;
taxname=; taxname=;
tsave = trees.ctf;
tsave *= trees.tnt.tre;
/*Consensus tree*/ /*Consensus tree*/
bbreak=tbr; bbreak=tbr;
nelsen *; nelsen *;
tchoose/;
/*Export consensus tree*/
export - original.tre;
taxname-;
export - original_no.tre;
taxname=;
tsave = original.ctf;
tsave *= original.tnt.tre;
/*Get Bremer/jak/boot support*/ /*Get Bremer/jak/boot support*/
tchoose/;
ttags=; ttags=;
sub 1; hold +1000; bbreak=fill; sub 1; hold +1000; bbreak=fill;
sub 2; hold +2000; bbreak=fill; sub 2; hold +2000; bbreak=fill;
@ -128,6 +140,11 @@ resample boot replications 1000;
/*Export consensus tree with supports*/ /*Export consensus tree with supports*/
ttags & resample.svg thickness 7 italics fontsize 15; ttags & resample.svg thickness 7 italics fontsize 15;
quote - /----------------------------------------------\;
quote - resample tags start ;
ttags/;
quote - resample tags stop ;
quote - \----------------------------------------------/;
export < resample.tre; export < resample.tre;
taxname-; taxname-;
export - resample_no.tre; export - resample_no.tre;
@ -138,6 +155,11 @@ taxname =;
ttags-; ttags-;
ttags=; ttags=;
apo >0; apo >0;
quote - /----------------------------------------------\;
quote - apomorphy tags start ;
ttags/;
quote - apomorphy tags stop ;
quote - \----------------------------------------------/;
ttags & apo.svg thickness 7 italics fontsize 15; ttags & apo.svg thickness 7 italics fontsize 15;
export < apo.tre; export < apo.tre;
taxname-; taxname-;
@ -176,12 +198,18 @@ quote - | The file `tnt.log` contains |;
quote - | K, TL, CI and RI |; quote - | K, TL, CI and RI |;
quote - | The file `trees*.tre` contain |; quote - | The file `trees*.tre` contain |;
quote - | trees found by mult and xmult |; quote - | trees found by mult and xmult |;
quote - | The file `original*.tre` contain |;
quote - | strict consensus tree without label |;
quote - | The file `resample*.tre` contain |; quote - | The file `resample*.tre` contain |;
quote - | strict consensus tree |; quote - | consensus tree with support |;
quote - | The file `apo*.tre` contain |; quote - | The file `apo*.tre` contain |;
quote - | tree with apomorphic character |; quote - | tree with apomorphic character |;
quote - | The file `*_no.tre` contain |; quote - | The file `*_no.tre` contain |;
quote - | tree with `taxaname-` |; quote - | tree with `taxaname-` |;
quote - | The file `*.ctf` tree file is |;
quote - | only readable for TNT |;
quote - | The file `*.tnt.tre` contain |;
quote - | is the ctf file with taxname |;
quote - | The file `resample.svg` contain |; quote - | The file `resample.svg` contain |;
quote - | strict consensus tree with |; quote - | strict consensus tree with |;
quote - | relative bremer, jak and boot |; quote - | relative bremer, jak and boot |;