line |
stmt |
bran |
cond |
sub |
pod |
time |
code |
1
|
1
|
|
|
1
|
|
24027
|
use strict; |
|
1
|
|
|
|
|
3
|
|
|
1
|
|
|
|
|
40
|
|
2
|
1
|
|
|
1
|
|
5
|
use warnings; |
|
1
|
|
|
|
|
2
|
|
|
1
|
|
|
|
|
57
|
|
3
|
|
|
|
|
|
|
package SeeAlso::DBI; |
4
|
|
|
|
|
|
|
{ |
5
|
|
|
|
|
|
|
$SeeAlso::DBI::VERSION = '0.71'; |
6
|
|
|
|
|
|
|
} |
7
|
|
|
|
|
|
|
#ABSTRACT: Store L objects in database. |
8
|
|
|
|
|
|
|
|
9
|
1
|
|
|
1
|
|
6886
|
use DBI; |
|
1
|
|
|
|
|
29456
|
|
|
1
|
|
|
|
|
71
|
|
10
|
1
|
|
|
1
|
|
989
|
use DBI::Const::GetInfoType; |
|
1
|
|
|
|
|
7555
|
|
|
1
|
|
|
|
|
168
|
|
11
|
1
|
|
|
1
|
|
10
|
use Carp qw(croak); |
|
1
|
|
|
|
|
1
|
|
|
1
|
|
|
|
|
51
|
|
12
|
|
|
|
|
|
|
|
13
|
1
|
|
|
1
|
|
5
|
use base qw( SeeAlso::Source ); |
|
1
|
|
|
|
|
1
|
|
|
1
|
|
|
|
|
603
|
|
14
|
1
|
|
|
1
|
|
7
|
use SeeAlso::Source qw(expand_from_config); |
|
1
|
|
|
|
|
2
|
|
|
1
|
|
|
|
|
1942
|
|
15
|
|
|
|
|
|
|
|
16
|
|
|
|
|
|
|
## no critic |
17
|
|
|
|
|
|
|
|
18
|
|
|
|
|
|
|
|
19
|
|
|
|
|
|
|
sub new { |
20
|
0
|
|
|
0
|
1
|
|
my ($class, %attr) = @_; |
21
|
0
|
|
|
|
|
|
expand_from_config( \%attr, 'DBI' ); |
22
|
|
|
|
|
|
|
|
23
|
0
|
0
|
|
|
|
|
if ( $attr{dbi} ) { |
24
|
0
|
0
|
|
|
|
|
$attr{dbi} = 'dbi:' . $attr{dbi} unless $attr{dbi} =~ /^dbi:/i; |
25
|
0
|
0
|
|
|
|
|
$attr{user} = "" unless defined $attr{user}; |
26
|
0
|
0
|
|
|
|
|
$attr{password} = "" unless defined $attr{password}; |
27
|
0
|
|
|
|
|
|
$attr{dbh} = DBI->connect( $attr{dbi}, $attr{user}, $attr{password} ); |
28
|
|
|
|
|
|
|
} |
29
|
|
|
|
|
|
|
|
30
|
0
|
0
|
|
|
|
|
croak('Parameter dbh or dbi required') |
31
|
|
|
|
|
|
|
unless UNIVERSAL::isa( $attr{dbh}, 'DBI::db' ); |
32
|
0
|
0
|
0
|
|
|
|
croak('Parameter dbh_ro must be a DBI object') |
33
|
|
|
|
|
|
|
if defined $attr{dbh_ro} and not UNIVERSAL::isa( $attr{dbh_ro}, 'DBI::db' ); |
34
|
|
|
|
|
|
|
|
35
|
0
|
|
|
|
|
|
my $self = bless { }, $class; |
36
|
|
|
|
|
|
|
|
37
|
0
|
0
|
|
|
|
|
$self->description( %attr ) if %attr; |
38
|
|
|
|
|
|
|
|
39
|
0
|
|
|
|
|
|
$self->{dbh} = $attr{dbh}; |
40
|
0
|
|
|
|
|
|
$self->{dbh_ro} = $attr{dbh_ro}; |
41
|
0
|
0
|
|
|
|
|
$self->{table} = defined $attr{table} ? $attr{table} : 'seealso'; |
42
|
0
|
|
0
|
|
|
|
$self->{key} = $attr{key} || 'hash'; |
43
|
|
|
|
|
|
|
|
44
|
0
|
|
0
|
|
|
|
$self->{idtype} = $attr{idtype} || 'SeeAlso::Identifier'; |
45
|
0
|
|
|
|
|
|
eval "require " . $self->{idtype}; |
46
|
0
|
0
|
|
|
|
|
croak $@ if $@; |
47
|
0
|
0
|
|
|
|
|
croak($self->{idtype} . ' is not a SeeAlso::Identifier') |
48
|
|
|
|
|
|
|
unless UNIVERSAL::isa( $self->{idtype}, 'SeeAlso::Identifier' ); |
49
|
|
|
|
|
|
|
|
50
|
|
|
|
|
|
|
# build SQL strings |
51
|
0
|
|
|
|
|
|
my $table = $self->{dbh}->quote_identifier( $self->{table} ); |
52
|
0
|
|
|
|
|
|
my $key = $self->{dbh}->quote_identifier('key'); |
53
|
0
|
|
|
|
|
|
my $label = $self->{dbh}->quote_identifier('label'); |
54
|
0
|
|
|
|
|
|
my $descr = $self->{dbh}->quote_identifier('description'); |
55
|
0
|
|
|
|
|
|
my $uri = $self->{dbh}->quote_identifier('uri'); |
56
|
0
|
|
|
|
|
|
my $db_name = $self->{dbh}->get_info( $GetInfoType{SQL_DBMS_NAME} ); |
57
|
|
|
|
|
|
|
|
58
|
0
|
|
|
|
|
|
my @values_st; |
59
|
0
|
|
|
|
|
|
my @create_st = ("$key VARCHAR(255)"); |
60
|
|
|
|
|
|
|
|
61
|
0
|
0
|
|
|
|
|
if (defined $attr{label}) { |
62
|
0
|
|
|
|
|
|
$self->{label} = $attr{label}; |
63
|
|
|
|
|
|
|
} else { |
64
|
0
|
|
|
|
|
|
push @values_st, $label; |
65
|
0
|
|
|
|
|
|
push @create_st, "$label TEXT" |
66
|
|
|
|
|
|
|
} |
67
|
0
|
0
|
|
|
|
|
if (defined $attr{description}) { |
68
|
0
|
|
|
|
|
|
$self->{descr} = $attr{description}; |
69
|
|
|
|
|
|
|
} else { |
70
|
0
|
|
|
|
|
|
push @values_st, $descr; |
71
|
0
|
|
|
|
|
|
push @create_st, "$descr TEXT", |
72
|
|
|
|
|
|
|
} |
73
|
0
|
0
|
|
|
|
|
if (defined $attr{uri}) { |
74
|
0
|
|
|
|
|
|
$self->{uri} = $attr{uri}; |
75
|
|
|
|
|
|
|
} else { |
76
|
0
|
|
|
|
|
|
push @values_st, $uri; |
77
|
0
|
|
|
|
|
|
push @create_st, "$uri TEXT", |
78
|
|
|
|
|
|
|
} |
79
|
|
|
|
|
|
|
|
80
|
0
|
|
|
|
|
|
my $values = join(", ", @values_st); |
81
|
|
|
|
|
|
|
|
82
|
0
|
|
|
|
|
|
my %sql = ( |
83
|
|
|
|
|
|
|
'select' => "SELECT $values FROM $table WHERE $key=?", |
84
|
0
|
|
|
|
|
|
'insert' => "INSERT INTO $table ($key,$values) VALUES (?," . join(",", map {'?'} @values_st) . ")", |
85
|
|
|
|
|
|
|
# update => "UPDATE $table SET $value = ? WHERE $key=?", |
86
|
|
|
|
|
|
|
'delete' => "DELETE FROM $table WHERE $key = ?", |
87
|
|
|
|
|
|
|
'clear' => "DELETE FROM $table", |
88
|
|
|
|
|
|
|
# get_keys => "SELECT DISTINCT $key FROM $table", |
89
|
|
|
|
|
|
|
'create' => "CREATE TABLE IF NOT EXISTS $table (" . join(", ", @create_st) . ")", |
90
|
|
|
|
|
|
|
# TODO: create index: |
91
|
|
|
|
|
|
|
# $dbh->do( 'CREATE INDEX '.$table.'_isbn_idx ON '.$table.' (isbn)' ); |
92
|
|
|
|
|
|
|
'drop' => "DROP TABLE $table" |
93
|
|
|
|
|
|
|
); |
94
|
|
|
|
|
|
|
|
95
|
0
|
|
|
|
|
|
foreach my $c ( qw(select insert delete clear create) ) { |
96
|
0
|
0
|
|
|
|
|
$self->{$c} = $attr{$c} ? $attr{$c} : $sql{$c}; |
97
|
|
|
|
|
|
|
} |
98
|
|
|
|
|
|
|
|
99
|
0
|
0
|
|
|
|
|
$self->create if $attr{build}; |
100
|
|
|
|
|
|
|
|
101
|
0
|
|
|
|
|
|
return $self; |
102
|
|
|
|
|
|
|
} |
103
|
|
|
|
|
|
|
|
104
|
|
|
|
|
|
|
|
105
|
|
|
|
|
|
|
sub query_callback { |
106
|
0
|
|
|
0
|
1
|
|
my ($self, $identifier) = @_; |
107
|
|
|
|
|
|
|
|
108
|
0
|
|
|
|
|
|
my $key = $self->key($identifier); |
109
|
|
|
|
|
|
|
|
110
|
0
|
0
|
|
|
|
|
my $dbh = $self->{dbh_ro} ? $self->{dbh_ro} : $self->{dbh}; |
111
|
0
|
0
|
|
|
|
|
my $sth = $dbh->prepare_cached( $self->{'select'} ) |
112
|
|
|
|
|
|
|
or croak $dbh->errstr; |
113
|
0
|
0
|
|
|
|
|
$sth->execute($key) or croak $sth->errstr; |
114
|
0
|
|
|
|
|
|
my $result = $sth->fetchall_arrayref; |
115
|
|
|
|
|
|
|
|
116
|
0
|
|
|
|
|
|
my $response = SeeAlso::Response->new( $identifier ); |
117
|
|
|
|
|
|
|
|
118
|
0
|
|
|
|
|
|
foreach my $row ( @{$result} ) { |
|
0
|
|
|
|
|
|
|
119
|
0
|
|
|
|
|
|
my ($label, $description, $uri) = $self->enriched_row( $key, @{$row} ); |
|
0
|
|
|
|
|
|
|
120
|
0
|
|
|
|
|
|
$response->add( $label, $description, $uri ); |
121
|
|
|
|
|
|
|
} |
122
|
|
|
|
|
|
|
|
123
|
0
|
|
|
|
|
|
return $response; |
124
|
|
|
|
|
|
|
} |
125
|
|
|
|
|
|
|
|
126
|
|
|
|
|
|
|
|
127
|
|
|
|
|
|
|
sub key { |
128
|
0
|
|
|
0
|
1
|
|
my ($self, $identifier) = @_; |
129
|
|
|
|
|
|
|
|
130
|
0
|
0
|
|
|
|
|
if ( not UNIVERSAL::isa( $identifier, $self->{idtype} ) ) { |
131
|
0
|
|
|
|
|
|
my $class = $self->{idtype}; |
132
|
0
|
|
|
|
|
|
$identifier = eval "new $class(\$identifier)"; # TODO: what if this fails? |
133
|
|
|
|
|
|
|
} |
134
|
|
|
|
|
|
|
|
135
|
0
|
0
|
|
|
|
|
if ($self->{key} eq 'hash') { |
|
|
0
|
|
|
|
|
|
|
|
0
|
|
|
|
|
|
|
|
0
|
|
|
|
|
|
136
|
0
|
|
|
|
|
|
return $identifier->hash; |
137
|
|
|
|
|
|
|
} elsif ($self->{key} eq 'value') { |
138
|
0
|
|
|
|
|
|
return $identifier->value; |
139
|
|
|
|
|
|
|
} elsif ($self->{key} eq 'canonical') { |
140
|
0
|
|
|
|
|
|
return $identifier->canonical; |
141
|
|
|
|
|
|
|
} elsif (ref($self->{key}) eq 'CODE') { |
142
|
0
|
|
|
|
|
|
my $code = $self->{key}; |
143
|
0
|
|
|
|
|
|
return $code( $identifier ); |
144
|
|
|
|
|
|
|
} |
145
|
|
|
|
|
|
|
|
146
|
0
|
|
|
|
|
|
return $identifier->hash; |
147
|
|
|
|
|
|
|
} |
148
|
|
|
|
|
|
|
|
149
|
|
|
|
|
|
|
|
150
|
|
|
|
|
|
|
sub create { |
151
|
0
|
|
|
0
|
1
|
|
my ($self) = @_; |
152
|
0
|
0
|
|
|
|
|
$self->{dbh}->do( $self->{'create'} ) or croak $self->{dbh}->errstr; |
153
|
0
|
|
|
|
|
|
return; |
154
|
|
|
|
|
|
|
} |
155
|
|
|
|
|
|
|
|
156
|
|
|
|
|
|
|
|
157
|
|
|
|
|
|
|
sub clear { |
158
|
0
|
|
|
0
|
1
|
|
my ($self) = @_; |
159
|
0
|
0
|
|
|
|
|
$self->{dbh}->do( $self->{'clear'} ) or croak $self->{dbh}->errstr; |
160
|
0
|
|
|
|
|
|
return; |
161
|
|
|
|
|
|
|
} |
162
|
|
|
|
|
|
|
|
163
|
|
|
|
|
|
|
|
164
|
|
|
|
|
|
|
sub drop { |
165
|
0
|
|
|
0
|
1
|
|
my ($self) = @_; |
166
|
0
|
0
|
|
|
|
|
$self->{dbh}->do( $self->{'drop'} ) or croak $self->{dbh}->errstr; |
167
|
0
|
|
|
|
|
|
return; |
168
|
|
|
|
|
|
|
} |
169
|
|
|
|
|
|
|
|
170
|
|
|
|
|
|
|
|
171
|
|
|
|
|
|
|
sub delete { |
172
|
0
|
|
|
0
|
1
|
|
my ($self, $identifier) = @_; |
173
|
0
|
0
|
|
|
|
|
$self->{dbh}->do( $self->{'delete'}, undef, $self->key($identifier) ) |
174
|
|
|
|
|
|
|
or croak $self->{dbh}->errstr; |
175
|
|
|
|
|
|
|
} |
176
|
|
|
|
|
|
|
|
177
|
|
|
|
|
|
|
|
178
|
|
|
|
|
|
|
sub update { |
179
|
0
|
|
|
0
|
1
|
|
my ($self, $response) = @_; |
180
|
0
|
|
|
|
|
|
$self->delete( $response->identifier ); |
181
|
0
|
|
|
|
|
|
$self->insert( $response ); |
182
|
|
|
|
|
|
|
} |
183
|
|
|
|
|
|
|
|
184
|
|
|
|
|
|
|
|
185
|
|
|
|
|
|
|
sub insert { |
186
|
0
|
|
|
0
|
1
|
|
my ($self, $response) = @_; |
187
|
|
|
|
|
|
|
|
188
|
0
|
0
|
|
|
|
|
croak('SeeAlso::Response object required') unless |
189
|
|
|
|
|
|
|
UNIVERSAL::isa( $response, 'SeeAlso::Response' ); |
190
|
|
|
|
|
|
|
|
191
|
0
|
0
|
|
|
|
|
return 0 unless $response->size; |
192
|
|
|
|
|
|
|
|
193
|
|
|
|
|
|
|
# type hash/canonical/value |
194
|
0
|
|
|
|
|
|
my $key = $self->key( $response->identifier ); |
195
|
0
|
|
|
|
|
|
my @rows; |
196
|
|
|
|
|
|
|
|
197
|
0
|
|
|
|
|
|
for(my $i=0; $i<$response->size; $i++) { |
198
|
0
|
|
|
|
|
|
my ($label, $description, $uri) = $response->get($i); |
199
|
0
|
|
|
|
|
|
my @insert = ($key); |
200
|
0
|
0
|
|
|
|
|
push @insert, $label unless defined $self->{label}; |
201
|
0
|
0
|
|
|
|
|
push @insert, $description unless defined $self->{descr}; |
202
|
0
|
0
|
|
|
|
|
push @insert, $uri unless defined $self->{uri}; |
203
|
0
|
|
|
|
|
|
push @rows, \@insert; |
204
|
|
|
|
|
|
|
} |
205
|
|
|
|
|
|
|
|
206
|
0
|
|
|
0
|
|
|
return $self->bulk_insert( sub { shift @rows } ); |
|
0
|
|
|
|
|
|
|
207
|
|
|
|
|
|
|
} |
208
|
|
|
|
|
|
|
|
209
|
|
|
|
|
|
|
|
210
|
|
|
|
|
|
|
sub bulk_insert { |
211
|
0
|
|
|
0
|
1
|
|
my ($self, $sub) = @_; |
212
|
|
|
|
|
|
|
|
213
|
0
|
0
|
|
|
|
|
croak('bulk_insert expects a code reference') unless ref($sub) eq 'CODE'; |
214
|
|
|
|
|
|
|
|
215
|
0
|
|
|
|
|
|
my $sth = $self->{dbh}->prepare_cached( $self->{insert} ); |
216
|
0
|
|
|
|
|
|
my $tuples = $sth->execute_for_fetch( $sub ); |
217
|
0
|
|
|
|
|
|
$sth->finish; |
218
|
|
|
|
|
|
|
|
219
|
0
|
|
|
|
|
|
return $tuples; |
220
|
|
|
|
|
|
|
} |
221
|
|
|
|
|
|
|
|
222
|
|
|
|
|
|
|
# ($key,$label,$description,$uri,@row) => ($label,$description,$uri) |
223
|
|
|
|
|
|
|
sub enriched_row { |
224
|
0
|
|
|
0
|
1
|
|
my ($self, @row) = @_; |
225
|
|
|
|
|
|
|
|
226
|
0
|
|
|
|
|
|
my @row2 = @row; |
227
|
0
|
|
|
|
|
|
my $key = shift @row2; |
228
|
0
|
0
|
|
|
|
|
my $label = defined $self->{label} ? $self->{label} : shift @row2; |
229
|
0
|
0
|
|
|
|
|
my $description = defined $self->{descr} ? $self->{descr} : shift @row2; |
230
|
0
|
0
|
|
|
|
|
my $uri = defined $self->{uri} ? $self->{uri} : shift @row2; |
231
|
|
|
|
|
|
|
# code references not supported yet! |
232
|
|
|
|
|
|
|
|
233
|
1
|
|
|
1
|
|
8
|
no warnings; |
|
1
|
|
|
|
|
2
|
|
|
1
|
|
|
|
|
419
|
|
234
|
0
|
0
|
|
|
|
|
if ( defined $self->{label} ) { |
235
|
0
|
|
|
|
|
|
$label =~ s/#([0-9])/${row[$1-1]}/g; |
236
|
|
|
|
|
|
|
} |
237
|
0
|
0
|
|
|
|
|
if ( defined $self->{descr} ) { |
238
|
0
|
|
|
|
|
|
$description =~ s/#([0-9])/${row[$1-1]}/g; |
239
|
|
|
|
|
|
|
} |
240
|
0
|
0
|
|
|
|
|
if ( defined $self->{uri} ) { |
241
|
0
|
|
|
|
|
|
$uri =~ s/#([0-9])/${row[$1-1]}/g; |
242
|
|
|
|
|
|
|
} |
243
|
|
|
|
|
|
|
|
244
|
0
|
|
|
|
|
|
return ( $label, $description, $uri ); |
245
|
|
|
|
|
|
|
} |
246
|
|
|
|
|
|
|
|
247
|
|
|
|
|
|
|
|
248
|
|
|
|
|
|
|
|
249
|
|
|
|
|
|
|
sub bulk_import { |
250
|
0
|
|
|
0
|
1
|
|
my ($self, %param) = @_; |
251
|
0
|
|
|
|
|
|
my $file = $param{file}; |
252
|
0
|
0
|
|
|
|
|
croak 'No file specified' unless defined $file; |
253
|
|
|
|
|
|
|
|
254
|
0
|
0
|
|
|
|
|
my $label = defined $param{label} ? $param{label} : '#2'; |
255
|
0
|
0
|
|
|
|
|
my $description = defined $param{descr} ? $param{descr} : '#3'; |
256
|
0
|
0
|
|
|
|
|
my $uri = defined $param{uri} ? $param{uri} : '#4'; |
257
|
|
|
|
|
|
|
|
258
|
0
|
0
|
|
|
|
|
open FILE, $file or croak "Failed to open file $file"; |
259
|
0
|
|
|
|
|
|
binmode FILE, ":utf8"; |
260
|
|
|
|
|
|
|
|
261
|
|
|
|
|
|
|
$self->bulk_insert( sub { |
262
|
0
|
|
|
0
|
|
|
my $line = readline(*FILE); |
263
|
0
|
0
|
|
|
|
|
return unless $line; |
264
|
0
|
|
|
|
|
|
chomp($line); |
265
|
0
|
|
|
|
|
|
my @v = split /\t/, $line; |
266
|
0
|
|
|
|
|
|
my ($l,$d,$u) = ($label,$description,$uri); |
267
|
|
|
|
|
|
|
|
268
|
1
|
|
|
1
|
|
7
|
no warnings; |
|
1
|
|
|
|
|
2
|
|
|
1
|
|
|
|
|
208
|
|
269
|
0
|
|
|
|
|
|
$l =~ s/#([0-9])/${v[$1-1]}/g; |
270
|
0
|
|
|
|
|
|
$d =~ s/#([0-9])/${v[$1-1]}/g; |
271
|
0
|
|
|
|
|
|
$u =~ s/#([0-9])/${v[$1-1]}/g; |
272
|
|
|
|
|
|
|
|
273
|
0
|
|
|
|
|
|
return [ $v[0], $l, $d, $u ]; |
274
|
0
|
|
|
|
|
|
} ); |
275
|
|
|
|
|
|
|
|
276
|
0
|
|
|
|
|
|
close FILE; |
277
|
|
|
|
|
|
|
} |
278
|
|
|
|
|
|
|
|
279
|
|
|
|
|
|
|
1; |
280
|
|
|
|
|
|
|
|
281
|
|
|
|
|
|
|
|
282
|
|
|
|
|
|
|
__END__ |