PB List IDs

--list_ids, -li

Description

Output all taxa/leaf identifiers

Modifiers

--params/-p

An integer can be passed in to specify how many columns the ids should be arranged in.

Examples

input file: single_tree.nex

#NEXUS

BEGIN TAXA;
    DIMENSIONS NTAX=42;
    TAXLABELS
    penHA34a
    penHA34b
    penHA32b
    penHA32a
    penSH30b
    penSH30a
    penSH28b
    penSH28a
    penIT13b
    penIT13a
    penIT12a
    firSA26b
    firGU7b
    firGU8b
    firSP18b
    firSP20b
    firSP36b
    firSP39b
    penSH31a
    penSH31b
    firSP19b
    firSP17b
    penIT12b
    firSA24a
    firSA24b
    firSA25a
    firSA26a
    firGU7a
    firGU8a
    firSP17a
    firSP18a
    firSP19a
    firSP20a
    firSP36a
    firSP39a
    firSA25b
    firSP40b
    firSP40a
    penIT11b
    penIT11a
    ovi47a
    ovi47b
  ;
END;

BEGIN TREES;
    TREE 1 = [&U] ((((penHA34a:1.0,penHA34b:1.0,penHA32b:1.0,penHA32a:1.0,penSH30b:1.0,penSH30a:1.0,penSH28b:1.0,penSH28a:1.0,penIT13b:1.0,penIT13a:1.0,penIT12a:1.0,firSA26b:1.0,firGU7b:1.0,firGU8b:1.0,firSP18b:1.0,firSP20b:1.0,firSP36b:1.0,firSP39b:1.0,penSH31a:1.0,penSH31b:1.0):1.0,(firSP19b:1.0,(firSP17b:1.0,penIT12b:1.0):1.0):1.0):1.0,firSA24a:1.0,firSA24b:1.0,firSA25a:1.0,firSA26a:1.0,firGU7a:1.0,firGU8a:1.0,firSP17a:1.0,firSP18a:1.0,firSP19a:1.0,firSP20a:1.0,firSP36a:1.0,firSP39a:1.0,(firSA25b:1.0,firSP40b:1.0):1.0,firSP40a:1.0,penIT11b:1.0,penIT11a:1.0):1.0,(ovi47a:1.0,ovi47b:1.0):1.0):1.0;

usage example 1

$: sb single_tree.nex -li

output

#### 1 ####
penHA34a
penHA34b
penHA32b
penHA32a
penSH30b
penSH30a
penSH28b
penSH28a
penIT13b
penIT13a
penIT12a
firSA26b
firGU7b
firGU8b
firSP18b
firSP20b
firSP36b
firSP39b
penSH31a
penSH31b
firSP19b
firSP17b
penIT12b
firSA24a
firSA24b
firSA25a
firSA26a
firGU7a
firGU8a
firSP17a
firSP18a
firSP19a
firSP20a
firSP36a
firSP39a
firSA25b
firSP40b
firSP40a
penIT11b
penIT11a
ovi47a
ovi47b

usage example 2

$: sb single_tree.nex -li 3

output

#### 1 ####
penHA34a	penHA34b	penHA32b
penHA32a	penSH30b	penSH30a
penSH28b	penSH28a	penIT13b
penIT13a	penIT12a	firSA26b
firGU7b	firGU8b	firSP18b
firSP20b	firSP36b	firSP39b
penSH31a	penSH31b	firSP19b
firSP17b	penIT12b	firSA24a
firSA24b	firSA25a	firSA26a
firGU7a	firGU8a	firSP17a
firSP18a	firSP19a	firSP20a
firSP36a	firSP39a	firSA25b
firSP40b	firSP40a	penIT11b
penIT11a	ovi47a	ovi47b