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#!perl
use strict;
use Config;
use File::Spec::Functions;
use FindBin qw( $Bin );
use Readonly;
use Test::More tests => 10;
Readonly my $PERL => $^X;
Readonly my $TEST_DATA_DIR => catdir( $Bin, 'data' );
Readonly my $TABMERGE => catfile( $Bin, '..', 'bin', 'tabmerge' );
ok( -e $TABMERGE, 'Script exists' );
SKIP: {
eval { require Text::TabularDisplay };
if ($@) {
skip 'Text::TabularDisplay not installed', 9;
}
my @files = map { catfile($TEST_DATA_DIR, "merge${_}.tab") } (1..3);
for my $file ( @files ) {
ok( -e $file, 'Data file "$file" exists' );
}
my $data = join( ' ', @files );
my @tests = (
{
name => 'List',
args => "--list $data",
expected =>
'+-----------+-------------------+
| Field | No. Times Present |
+-----------+-------------------+
| lod_score | 1 |
| name | 3 |
| position | 3 |
| type | 2 |
+-----------+-------------------+
'
},
{
name => 'Merge min',
args => "$data",
expected =>
'+----------+----------+
| name | position |
+----------+----------+
| RM104 | 2.30 |
| RM105 | 4.5 |
| TX5509 | 10.4 |
| UU189 | 19.0 |
| Xpsm122 | 3.3 |
| Xpsr9556 | 4.5 |
| DRTL | 2.30 |
| ALTX | 4.5 |
| DWRF | 10.4 |
+----------+----------+
'
},
{
name => 'Merge max',
args => "--max $data",
expected =>
'+-----------+----------+----------+--------+
| lod_score | name | position | type |
+-----------+----------+----------+--------+
| | RM104 | 2.30 | RFLP |
| | RM105 | 4.5 | RFLP |
| | TX5509 | 10.4 | AFLP |
| 2.4 | UU189 | 19.0 | SSR |
| 1.2 | Xpsm122 | 3.3 | Marker |
| 1.2 | Xpsr9556 | 4.5 | Marker |
| | DRTL | 2.30 | |
| | ALTX | 4.5 | |
| | DWRF | 10.4 | |
+-----------+----------+----------+--------+
'
},
{
name => 'Merge on named fields',
args => "-f name,type $data",
expected =>
'+----------+--------+
| name | type |
+----------+--------+
| RM104 | RFLP |
| RM105 | RFLP |
| TX5509 | AFLP |
| UU189 | SSR |
| Xpsm122 | Marker |
| Xpsr9556 | Marker |
| DRTL | |
| ALTX | |
| DWRF | |
+----------+--------+
'
},
{
name => 'Merge on named fields and sort',
args => "-f name,lod_score -s name $data",
expected =>
'+----------+-----------+
| name | lod_score |
+----------+-----------+
| ALTX | |
| DRTL | |
| DWRF | |
| RM104 | |
| RM105 | |
| TX5509 | |
| UU189 | 2.4 |
| Xpsm122 | 1.2 |
| Xpsr9556 | 1.2 |
+----------+-----------+
'
},
{
name => 'Merge on named fields and sort, print stdout',
args => "-f name,lod_score -s name --stdout $data",
expected =>
'name lod_score
ALTX
DRTL
DWRF
RM104
RM105
TX5509
UU189 2.4
Xpsm122 1.2
Xpsr9556 1.2
'
},
);
my $command = "$PERL $TABMERGE ";
for my $test ( @tests ) {
my $out = `$command $test->{'args'}`;
$test->{'expected'} =~ s/^\s+//xmsg;
is( $out, $test->{'expected'}, $test->{'name'} || 'Parsing' );
}
};
|
