polish using macro
This commit is contained in:
parent
39c4340a6d
commit
97cdc9a302
4 changed files with 41 additions and 43 deletions
15
README
15
README
|
@ -2,9 +2,15 @@
|
||||||
|
|
||||||
This scripts are followed MIT except for setk.run which belongs to Salvador Arias(Instituto Miguel Lillo, San Miguel de Tucumán, Argentina).
|
This scripts are followed MIT except for setk.run which belongs to Salvador Arias(Instituto Miguel Lillo, San Miguel de Tucumán, Argentina).
|
||||||
|
|
||||||
## tnt.run
|
## Usage
|
||||||
|
|
||||||
- `file.tnt` must be changed to your own file;
|
- OS: Arch Linux;
|
||||||
|
|
||||||
|
- `tnt run guoyi.run file.tnt`, `file.tnt` is your data;
|
||||||
|
|
||||||
|
- Type `;` and enter;
|
||||||
|
|
||||||
|
## Options
|
||||||
|
|
||||||
- `trees.tre`, `bt.tre` are trees with taxaname;
|
- `trees.tre`, `bt.tre` are trees with taxaname;
|
||||||
|
|
||||||
|
@ -14,8 +20,3 @@ This scripts are followed MIT except for setk.run which belongs to Salvador Aria
|
||||||
|
|
||||||
- `boot` can be replaced by `jack`;
|
- `boot` can be replaced by `jack`;
|
||||||
|
|
||||||
## setk_tnt.run
|
|
||||||
|
|
||||||
- `file.tnt` must be changed to your own file;
|
|
||||||
|
|
||||||
- You can find the recommended k from `setk.log` and then change in `piwe=` `tnt.run`;
|
|
||||||
|
|
33
guoyi.run
Normal file
33
guoyi.run
Normal file
|
@ -0,0 +1,33 @@
|
||||||
|
log tnt.log;
|
||||||
|
macro=;
|
||||||
|
taxname=;
|
||||||
|
mxram 10240;
|
||||||
|
nstates 32;
|
||||||
|
nstates NOGAPS;
|
||||||
|
|
||||||
|
procedure %1;
|
||||||
|
setk.run;
|
||||||
|
|
||||||
|
procedure %1;
|
||||||
|
hold 1000;
|
||||||
|
xpiwe(*;
|
||||||
|
mult=replic 1000 tbr hold 1;
|
||||||
|
xpiwe&;piwe&;
|
||||||
|
export= trees.tre;
|
||||||
|
taxname-;
|
||||||
|
export= trees_no.tre;
|
||||||
|
taxname=;
|
||||||
|
|
||||||
|
bbreak=tbr;
|
||||||
|
majority *;
|
||||||
|
|
||||||
|
ttags=;
|
||||||
|
resample boot replications 1000;
|
||||||
|
ttags & bt.svg thickness 7 italics fontsize 15;
|
||||||
|
export < bt.tre;
|
||||||
|
taxname-;
|
||||||
|
export - bt_no.tre;
|
||||||
|
|
||||||
|
length *;
|
||||||
|
stats.run;
|
||||||
|
quit ;
|
|
@ -1,4 +0,0 @@
|
||||||
log setk.log;
|
|
||||||
p file.tnt;
|
|
||||||
setk.run;
|
|
||||||
quit;
|
|
32
tnt.run
32
tnt.run
|
@ -1,32 +0,0 @@
|
||||||
mxram 10240 ;
|
|
||||||
nstates 32 ;
|
|
||||||
nstates NOGAPS ;
|
|
||||||
|
|
||||||
piwe=12;
|
|
||||||
|
|
||||||
procedure file.tnt ;
|
|
||||||
log tnt.log ;
|
|
||||||
taxname= ;
|
|
||||||
|
|
||||||
hold 100000 ;
|
|
||||||
xpiwe(*; mult=replic 1000 tbr hold 10;
|
|
||||||
xpiwe&; piwe&;
|
|
||||||
export= trees.tre ;
|
|
||||||
taxname- ;
|
|
||||||
export= trees_no.tre ;
|
|
||||||
taxname= ;
|
|
||||||
|
|
||||||
bbreak=tbr ;
|
|
||||||
majority * ;
|
|
||||||
|
|
||||||
ttags= ;
|
|
||||||
resample boot replications 1000;
|
|
||||||
ttags & bt.svg thickness 7 italics fontsize 15;
|
|
||||||
export < bt.tre ;
|
|
||||||
taxname- ;
|
|
||||||
export - bt_no.tre;
|
|
||||||
|
|
||||||
length * ;
|
|
||||||
stats.run;
|
|
||||||
|
|
||||||
quit ;
|
|
Loading…
Reference in a new issue