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#!/usr/bin/perl -w # # dbsort.pm # Copyright (C) 1991-2018 by John Heidemann <johnh@isi.edu> # # This program is distributed under terms of the GNU general # public license, version 2. See the file COPYING # in $dblibdir for details. # =head1 NAME dbsort - sort rows based on the the specified columns =head1 SYNOPSIS dbsort [-M MemLimit] [-T TemporaryDirectory] [-nNrR] column [column...] =head1 DESCRIPTION Sort all input rows as specified by the numeric or lexical columns. Dbsort consumes a fixed amount of memory regardless of input size. (It reverts to temporary files on disk if necessary, based on the -M and -T options.) The sort should be stable, but this has not yet been verified. For large inputs (those that spill to disk), L<dbsort> will do some of the merging in parallel, if possible. The B<--parallel> option can control the degree of parallelism, if desired. =head1 OPTIONS General option: =over 4 =item B<-M MaxMemBytes> Specify an approximate limit on memory usage (in bytes). Larger values allow faster sorting because more operations happen in-memory, provided you have enough memory. =item B<-T TmpDir> where to put tmp files. Also uses environment variable TMPDIR, if -T is not specified. Default is /tmp. =item B<--parallelism N> or B<-j N> Allow up to N merges to happen in parallel. Default is the number of CPUs in the machine. =back Sort specification options (can be interspersed with column names): =over 4 =item B<-r> or B<--descending> sort in reverse order (high to low) =item B<-R> or B<--ascending> sort in normal order (low to high) =item B<-t> or B<--type-inferred-sorting> sort fields by type (numeric or leicographic), automatically =item B<-T> or B<--no-type-inferred-sorting> sort fields only as specified based on C<-n> or C<-N> =item B<-n> or B<--numeric> sort numerically =item B<-N> or B<--lexical> sort lexicographically =back =for comment begin_standard_fsdb_options This module also supports the standard fsdb options: =over 4 =item B<-d> Enable debugging output. =item B<-i> or B<--input> InputSource Read from InputSource, typically a file name, or C<-> for standard input, or (if in Perl) a IO::Handle, Fsdb::IO or Fsdb::BoundedQueue objects. =item B<-o> or B<--output> OutputDestination Write to OutputDestination, typically a file name, or C<-> for standard output, or (if in Perl) a IO::Handle, Fsdb::IO or Fsdb::BoundedQueue objects. =item B<--autorun> or B<--noautorun> By default, programs process automatically, but Fsdb::Filter objects in Perl do not run until you invoke the run() method. The C<--(no)autorun> option controls that behavior within Perl. =item B<--header H> Use H as the full Fsdb header, rather than reading a header from then input. =item B<--help> Show help. =item B<--man> Show full manual. =back =for comment end_standard_fsdb_options =head1 SAMPLE USAGE =head2 Input: #fsdb cid cname 10 pascal 11 numanal 12 os =head2 Command: cat data.fsdb | dbsort cname =head2 Output: #fsdb cid cname 11 numanal 12 os 10 pascal # | dbsort cname =head1 SEE ALSO L<dbmerge(1)>, L<dbmapreduce(1)>, L<Fsdb(3)> =cut # WARNING: This code is derived from dbsort.pm; that is the master copy. use Fsdb::Filter::dbsort; my $f = new Fsdb::Filter::dbsort(@ARGV); $f->setup_run_finish; # or could just --autorun exit 0; =head1 AUTHOR and COPYRIGHT Copyright (C) 1991-2018 by John Heidemann <johnh@isi.edu> This program is distributed under terms of the GNU general public license, version 2. See the file COPYING with the distribution for details. =cut 1;
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