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Top Forums UNIX for Beginners Questions & Answers Cannot subset ranges from another range set Post 303042670 by cryptodice on Friday 3rd of January 2020 04:22:49 AM
Old 01-03-2020
Cannot subset ranges from another range set

Code:
Ca21chr2_C_albicans_SC5314	2159343	2228327	Ca21chr2_C_albicans_SC5314	636587	638608
Ca21chr2_C_albicans_SC5314	5286	50509	Ca21chr2_C_albicans_SC5314	634021	636276
Ca21chr2_C_albicans_SC5314	1886545	1900975	Ca21chr2_C_albicans_SC5314	610758	613544
Ca21chr2_C_albicans_SC5314	1919115	1930649	Ca21chr2_C_albicans_SC5314	606248	608308
Ca21chr2_C_albicans_SC5314	590278	603163	Ca21chr2_C_albicans_SC5314	1554724	1556511
Ca21chr2_C_albicans_SC5314	267403	279993	Ca21chr2_C_albicans_SC5314	1547799	1548998
Ca21chr2_C_albicans_SC5314	1611869	1622753	Ca21chr2_C_albicans_SC5314	1519257	1520960
Ca21chr2_C_albicans_SC5314	1479229	1490747	Ca21chr2_C_albicans_SC5314	1514712	1516178
Ca21chr2_C_albicans_SC5314	157814	166956	Ca21chr2_C_albicans_SC5314	897896	900774
Ca21chr2_C_albicans_SC5314	2148223	2149627	Ca21chr2_C_albicans_SC5314	890821	892818
Ca21chr2_C_albicans_SC5314	1041578	1051493	Ca21chr2_C_albicans_SC5314	588237	589598
Ca21chr2_C_albicans_SC5314	736894	745664	Ca21chr2_C_albicans_SC5314	557079	558713
Ca21chr2_C_albicans_SC5314	618550	627903	Ca21chr2_C_albicans_SC5314	7510	8043
Ca21chr2_C_albicans_SC5314	1116919	1125425	Ca21chr2_C_albicans_SC5314	922654	924717
Ca21chr2_C_albicans_SC5314	1262940	1271939	Ca21chr2_C_albicans_SC5314	1778986	1779687
Ca21chr2_C_albicans_SC5314	288630	296284	Ca21chr2_C_albicans_SC5314	795730	798201
Ca21chr2_C_albicans_SC5314	1250513	1258731	Ca21chr2_C_albicans_SC5314	766651	768309
Ca21chr2_C_albicans_SC5314	1499806	1508334	Ca21chr2_C_albicans_SC5314	763501	765159
Ca21chr2_C_albicans_SC5314	98269	105803	Ca21chr2_C_albicans_SC5314	758203	758733
Ca21chr2_C_albicans_SC5314	1604362	1611315	Ca21chr2_C_albicans_SC5314	700893	702539

This is a snippet of my data. What I want to do is to find out if the range of column 5 and column 6 is a subset of the range between column 2 and column 3. The data in column 2 and 3 are longer than data in column 5 and 6. A script has to scan through columns 2 and 3 in totality for every range defined by column 5 and 6. How do I do it. Any awk scripts? I am sorry if I did not follow the forum's rules, this is my first time using it.

Last edited by vbe; 01-03-2020 at 05:25 AM.. Reason: code tags - not quotes please
 

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funcolumnlookup(3)						SAORD Documentation						funcolumnlookup(3)

NAME
FunColumnLookup - lookup a Funtools column SYNOPSIS
#include <funtools.h> int FunColumnLookup(Fun fun, char *s, int which, char **name, int *type, int *mode, int *offset, int *n, int *width) DESCRIPTION
The FunColumnLookup() routine returns information about a named (or indexed) column. The first argument is the Fun handle associated with this set of columns. The second argument is the name of the column to look up. If the name argument is NULL, the argument that follows is the zero-based index into the column array of the column for which information should be returned. The next argument is a pointer to a char *, which will contain the name of the column. The arguments that follow are the addresses of int values into which the following information will be returned: o type: data type of column: o A: ASCII characters o B: unsigned 8-bit char o I: signed 16-bit int o U: unsigned 16-bit int (not standard FITS) o J: signed 32-bit int o V: unsigned 32-bit int (not standard FITS) o E: 32-bit float o D: 64-bit float o mode: bit flag status of column, including: o COL_ACTIVE 1 is column activated? o COL_IBUF 2 is column in the raw input data? o COL_PTR 4 is column a pointer to an array? o COL_READ 010 is read mode selected? o COL_WRITE 020 is write mode selected? o COL_REPLACEME 040 is this column being replaced by user data? o offset: byte offset in struct o n: number of elements (i.e. size of vector) in this column o width: size in bytes of this column If the named column exists, the routine returns a positive integer, otherwise zero is returned. (The positive integer is the index+1 into the column array where this column was located.) If NULL is passed as the return address of one (or more) of these values, no data is passed back for that information. For example: if( !FunColumnLookup(fun, "phas", 0, NULL NULL, NULL, NULL, &npha, NULL) ) gerror(stderr, "can't find phas column "); only returns information about the size of the phas vector. SEE ALSO
See funtools(7) for a list of Funtools help pages version 1.4.2 January 2, 2008 funcolumnlookup(3)
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