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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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Alzabo::Column(3pm)					User Contributed Perl Documentation				       Alzabo::Column(3pm)

NAME
Alzabo::Column - Column objects SYNOPSIS
use Alzabo::Column; foreach my $c ($table->columns) { print $c->name; } DESCRIPTION
This object represents a column. It holds data specific to a column. METHODS
table Returns the table object to which this column belongs. name Returns the column's name as a string. nullable Returns a boolean value indicating whether or not NULLs are allowed in this column. attributes A column's attributes are strings describing the column (for example, valid attributes in MySQL are 'UNSIGNED' or 'ZEROFILL'. This method returns a list of strings of such strings. has_attribute This method can be used to test whether or not a column has a particular attribute. By default, the check is case-insensitive. It takes the following parameters: * attribute => $attribute * case_sensitive => 0 or 1 (defaults to 0) It returns a boolean value indicating whether or not the column has this particular attribute. type Returns the column's type as a string. sequenced The meaning of a sequenced column varies from one RDBMS to another. In those with sequences, it means that a sequence is created and that values for this column will be drawn from it for inserts into this table. In databases without sequences, the nearest analog for a sequence is used (in MySQL the column is given the AUTO_INCREMENT attribute, in Sybase the identity attribute). In general, this only has meaning for the primary key column of a table with a single column primary key. Setting the column as sequenced means its value never has to be provided to when calling "Alzabo::Runtime::Table->insert". Returns a boolean value indicating whether or not this column is sequenced. default Returns the default value of the column as a string, or undef if there is no default. default_is_raw Returns true if the default is intended to be provided to the DBMS as-is, without quoting, fore example "NOW()" or "current_timestamp". length Returns the length attribute of the column, or undef if there is none. precision Returns the precision attribute of the column, or undef if there is none. is_primary_key Returns a boolean value indicating whether or not this column is part of its table's primary key. is_numeric Returns a boolean value indicating whether the column is a numeric type column. is_integer Returns a boolean value indicating whether the column is a numeric type column. is_floating_point Returns a boolean value indicating whether the column is a numeric type column. is_character Returns a boolean value indicating whether the column is a character type column. This is true only for any columns which are defined to hold text data, regardless of size. is_date Returns a boolean value indicating whether the column is a date type column. is_datetime Returns a boolean value indicating whether the column is a datetime type column. is_time Returns a boolean value indicating whether the column is a time type column. is_time_interval Returns a boolean value indicating whether the column is a time interval type column. is_blob Returns a boolean value indicating whether the column is a blob column. This is true for any columns defined to hold binary data, regardless of size. generic_type This methods returns one of the following strings: integer floating_point character date datetime time blob unknown definition The definition object is very rarely of interest. Use the "type()" method if you are only interested in the column's type. This methods returns the "Alzabo::ColumnDefinition" object which holds this column's type information. comment Returns the comment associated with the column object, if any. AUTHOR
Dave Rolsky, <autarch@urth.org> perl v5.8.8 2007-12-23 Alzabo::Column(3pm)
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