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Full Discussion: How to get min and max values using awk?
Top Forums Shell Programming and Scripting How to get min and max values using awk? Post 302911736 by redse171 on Saturday 2nd of August 2014 05:03:02 PM
Old 08-02-2014
How to get min and max values using awk?
Hi,

I need your kind help to get min and max values from file based on value in $5 .

File1
Code:
SP12.3	stc	2240806	2240808	+	ID1_N003	 ID2_N003T0
SP12.3	sto	2241682	2241684	+	ID1_N003	 ID2_N003T0
SP12.3	XE	2239943	2240011	+	ID1_N003	 ID2_N003T0
SP12.3	XE	2240077	2241254	+	ID1_N003	 ID2_N003T0
SP12.3	CD	2240806	2241254	+	ID1_N003	 ID2_N003T0
SP12.3	XE	2241471	2241684	+	ID1_N003	 ID2_N003T0
SP12.3	CD	2241471	2241681	+	ID1_N003	 ID2_N003T0
SP12.3	stc	2245127	2245129	+	ID1_N005	 ID2_N005T0
SP12.3	sto	2246954	2246956	+	ID1_N005	 ID2_N005T0
SP12.3	XE	2244762	2247195	+	ID1_N005	 ID2_N005T0
SP12.3	CD	2245127	2246953	+	ID1_N005	 ID2_N005T0
SP12.3	stc	2253115	2253117	-	ID1_N006	 ID2_N006T0
SP12.3	sto	2249759	2249761	-	ID1_N006	 ID2_N006T0
SP12.3	XE	2253090	2254054	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2253090	2253117	-	ID1_N006	 ID2_N006T0
SP12.3	XE	2252492	2252908	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2252492	2252908	-	ID1_N006	 ID2_N006T0
SP12.3	XE	2251730	2251882	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2251730	2251882	-	ID1_N006	 ID2_N006T0
SP12.3	XE	2251591	2251664	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2251591	2251664	-	ID1_N006	 ID2_N006T0
SP12.3	XE	2249887	2251530	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2249887	2251530	-	ID1_N006	 ID2_N006T0
SP12.3	XE	2249087	2249821	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2249762	2249821	-	ID1_N006	 ID2_N006T0
SP12.3	stc	2252073	2252075	-	ID1_N006	 ID2_N006T1
SP12.3	sto	2249759	2249761	-	ID1_N006	 ID2_N006T1
SP12.3	XE	2252492	2252973	-	ID1_N006	 ID2_N006T1
SP12.3	XE	2251730	2252227	-	ID1_N006	 ID2_N006T1
SP12.3	CD	2251730	2252075	-	ID1_N006	 ID2_N006T1
SP12.3	XE	2251591	2251664	-	ID1_N006	 ID2_N006T1
SP12.3	CD	2251591	2251664	-	ID1_N006	 ID2_N006T1
SP12.3	XE	2249887	2251530	-	ID1_N006	 ID2_N006T1
SP12.3	CD	2249887	2251530	-	ID1_N006	 ID2_N006T1
SP12.3	XE	2249090	2249821	-	ID1_N006	 ID2_N006T1
SP12.3	CD	2249762	2249821	-	ID1_N006	 ID2_N006T1
SP12.5	stc	3001307	3001309	+	ID1_N01140	ID2_N01140T0
SP12.5	sto	3005026	3005028	+	ID1_N01140	ID2_N01140T0
SP12.5	XE	3000439	3001397	+	ID1_N01140	ID2_N01140T0
SP12.5	CD	3001307	3001397	+	ID1_N01140	ID2_N01140T0
SP12.5	XE	3001572	3002765	+	ID1_N01140	ID2_N01140T0
SP12.5	CD	3001572	3002765	+	ID1_N01140	ID2_N01140T0
SP12.5	XE	3002821	3004797	+	ID1_N01140	ID2_N01140T0
SP12.5	CD	3002821	3004797	+	ID1_N01140	ID2_N01140T0
SP12.5	XE	3004855	3004929	+	ID1_N01140	ID2_N01140T0
SP12.5	CD	3004855	3004929	+	ID1_N01140	ID2_N01140T0
SP12.5	XE	3004994	3005417	+	ID1_N01140	ID2_N01140T0
SP12.5	CD	3004994	3005025	+	ID1_N01140	ID2_N01140T0

I did the following codes:-

Code:
awk -F"\t" '$2=="CD"{if ($5~/\+/) {print $1"\t"$3"\t"$4"\t"$5"\t"$6"\t"$7} else {print $1"\t"$4"\t"$3"\t"$5"\t"$6"\t"$7}}' file1

But the results shows all lines containing "CD" patterns like below:
Code:
SP12.3	CD	2240806	2241254	+	ID1_N003	 ID2_N003T0
SP12.3	CD	2241471	2241681	+	ID1_N003	 ID2_N003T0
SP12.3	CD	2245127	2246953	+	ID1_N005	 ID2_N005T0
SP12.3	CD	2253090	2253117	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2252492	2252908	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2251730	2251882	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2251591	2251664	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2249887	2251530	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2249762	2249821	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2251730	2252075	-	ID1_N006	 ID2_N006T1
SP12.3	CD	2251591	2251664	-	ID1_N006	 ID2_N006T1
SP12.3	CD	2249887	2251530	-	ID1_N006	 ID2_N006T1
SP12.3	CD	2249762	2249821	-	ID1_N006	 ID2_N006T1
SP12.5	CD	3001307	3001397	+	ID1_N01140	ID2_N01140T0
SP12.5	CD	3001572	3002765	+	ID1_N01140	ID2_N01140T0
SP12.5	CD	3002821	3004797	+	ID1_N01140	ID2_N01140T0
SP12.5	CD	3004855	3004929	+	ID1_N01140	ID2_N01140T0
SP12.5	CD	3004994	3005025	+	ID1_N01140	ID2_N01140T0


The real output that i want will only show min and max value if "CD" pattern is found, and it should be based on value in $5. If "+", then the value in $3 for the first "CD" found and value in $4 for the last "CD" found for each ID2 ($6) will be printed in $3 and $4 of output file respectively. If "-", then the value in $4 for the first "CD" found and value in $3 for the last "CD" found for each ID2($6) will be printed in $4 and $3 respectively like below:-

Code:
SP12.3	CD	2240806	2241681	+	ID1_N003	 ID2_N003T0
SP12.3	CD	2249762	2253117	-	ID1_N006	 ID2_N006T0
SP12.3	CD	2249762	2252075	-	ID1_N006	 ID2_N006T1
SP12.5	CD	3001307	3005025	+	ID1_N01140	ID2_N01140T0

If there is only 1 CD for any ID2 ($7), the line will also be omitted. Would appreciate if you can help me on this. thanks
Last edited by redse171; 08-03-2014 at 06:20 PM.. Reason: for better sample and description
 

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