"Commander In Chief" doesn't mean that he is the boss of the Military, merely that he is the Administrator, just as he is the Administrator of the Executive Branch, charged with "executing faithfully" all the laws passed by Congress and all the Decisions rendered by the Supreme Court.
1	"	"	PUNCT	``	_	2	punct	2:punct	SpaceAfter=No
2	Commander	Commander	PROPN	NNP	Number=Sing	8	nsubj	8:nsubj|18:nsubj|18.1:nsubj	_
3	In	in	ADP	IN	_	4	case	4:case	_
4	Chief	Chief	PROPN	NNP	Number=Sing	2	nmod	2:nmod:in	SpaceAfter=No
5	"	"	PUNCT	''	_	2	punct	2:punct	_
6-7	doesn't	_	_	_	_	_	_	_	_
6	does	do	AUX	VBZ	Mood=Ind|Number=Sing|Person=3|Tense=Pres|VerbForm=Fin	8	aux	8:aux	_
7	n't	not	PART	RB	_	8	advmod	8:advmod	_
8	mean	mean	VERB	VB	VerbForm=Inf	0	root	0:root	_
9	that	that	SCONJ	IN	_	13	mark	13:mark	_
10	he	he	PRON	PRP	Case=Nom|Gender=Masc|Number=Sing|Person=3|PronType=Prs	13	nsubj	13:nsubj	_
11	is	be	AUX	VBZ	Mood=Ind|Number=Sing|Person=3|Tense=Pres|VerbForm=Fin	13	cop	13:cop	_
12	the	the	DET	DT	Definite=Def|PronType=Art	13	det	13:det	_
13	boss	boss	NOUN	NN	Number=Sing	8	ccomp	8:ccomp	_
14	of	of	ADP	IN	_	16	case	16:case	_
15	the	the	DET	DT	Definite=Def|PronType=Art	16	det	16:det	_
16	Military	military	NOUN	NN	Number=Sing	13	nmod	13:nmod:of	SpaceAfter=No
17	,	,	PUNCT	,	_	8	punct	8:punct	_
18	merely	merely	ADV	RB	_	8	conj	8:conj|18.1:advmod	_
18.1	mean	mean	VERB	VB	VerbForm=Inf	_	_	8:conj	CopyOf=8
19	that	that	SCONJ	IN	_	23	mark	23:mark	_
20	he	he	PRON	PRP	Case=Nom|Gender=Masc|Number=Sing|Person=3|PronType=Prs	23	nsubj	23:nsubj	_
21	is	be	AUX	VBZ	Mood=Ind|Number=Sing|Person=3|Tense=Pres|VerbForm=Fin	23	cop	23:cop	_
22	the	the	DET	DT	Definite=Def|PronType=Art	23	det	23:det	_
23	Administrator	administrator	NOUN	NN	Number=Sing	18	orphan	18.1:ccomp	SpaceAfter=No
24	,	,	PUNCT	,	_	23	punct	23:punct	_
25	just	just	ADV	RB	_	30	advmod	30:advmod	_
26	as	as	SCONJ	IN	_	30	mark	30:mark	_
27	he	he	PRON	PRP	Case=Nom|Gender=Masc|Number=Sing|Person=3|PronType=Prs	30	nsubj	30:nsubj	_
28	is	be	AUX	VBZ	Mood=Ind|Number=Sing|Person=3|Tense=Pres|VerbForm=Fin	30	cop	30:cop	_
29	the	the	DET	DT	Definite=Def|PronType=Art	30	det	30:det	_
30	Administrator	administrator	NOUN	NN	Number=Sing	23	advcl	23:advcl:as	_
31	of	of	ADP	IN	_	34	case	34:case	_
32	the	the	DET	DT	Definite=Def|PronType=Art	34	det	34:det	_
33	Executive	executive	ADJ	JJ	Degree=Pos	34	amod	34:amod	_
34	Branch	branch	NOUN	NN	Number=Sing	30	nmod	30:nmod:of	SpaceAfter=No
35	,	,	PUNCT	,	_	30	punct	30:punct	_
36	charged	charge	VERB	VBN	Tense=Past|VerbForm=Part	30	acl	30:acl	_
37	with	with	SCONJ	IN	_	39	mark	39:mark	_
38	"	"	PUNCT	``	_	39	punct	39:punct	SpaceAfter=No
39	executing	execute	VERB	VBG	VerbForm=Ger	36	advcl	36:advcl:with	_
40	faithfully	faithfully	ADV	RB	_	39	advmod	39:advmod	SpaceAfter=No
41	"	"	PUNCT	''	_	39	punct	39:punct	_
42	all	all	DET	PDT	_	44	det:predet	44:det:predet	_
43	the	the	DET	DT	Definite=Def|PronType=Art	44	det	44:det	_
44	laws	law	NOUN	NNS	Number=Plur	39	obj	39:obj	_
45	passed	pass	VERB	VBN	Tense=Past|VerbForm=Part	44	acl	44:acl	_
46	by	by	ADP	IN	_	47	case	47:case	_
47	Congress	Congress	PROPN	NNP	Number=Sing	45	obl	45:obl:by	_
48	and	and	CCONJ	CC	_	51	cc	51:cc	_
49	all	all	DET	PDT	_	51	det:predet	51:det:predet	_
50	the	the	DET	DT	Definite=Def|PronType=Art	51	det	51:det	_
51	Decisions	decision	NOUN	NNS	Number=Plur	44	conj	39:obj|44:conj:and	_
52	rendered	render	VERB	VBN	Tense=Past|VerbForm=Part	51	acl	51:acl	_
53	by	by	ADP	IN	_	56	case	56:case	_
54	the	the	DET	DT	Definite=Def|PronType=Art	56	det	56:det	_
55	Supreme	Supreme	ADJ	NNP	Degree=Pos	56	amod	56:amod	_
56	Court	Court	PROPN	NNP	Number=Sing	52	obl	52:obl:by	SpaceAfter=No
57	.	.	PUNCT	.	_	8	punct	8:punct	_
