1 |
package WebPAC::Input::ISI; |
2 |
|
3 |
use warnings; |
4 |
use strict; |
5 |
|
6 |
use WebPAC::Input; |
7 |
use base qw/WebPAC::Common/; |
8 |
|
9 |
use Data::Dump qw/dump/; |
10 |
use Carp qw/confess/; |
11 |
|
12 |
=head1 NAME |
13 |
|
14 |
WebPAC::Input::ISI - support for ISI Export Format |
15 |
|
16 |
=cut |
17 |
|
18 |
our $VERSION = '0.04'; |
19 |
|
20 |
our $debug = 0; |
21 |
|
22 |
|
23 |
=head1 SYNOPSIS |
24 |
|
25 |
Open file in ISI export fromat |
26 |
|
27 |
my $input = new WebPAC::Input::ISI( |
28 |
path => '/path/to/ISI/records.txt', |
29 |
); |
30 |
|
31 |
=head1 FUNCTIONS |
32 |
|
33 |
=head2 new |
34 |
|
35 |
Returns new low-level input API object |
36 |
|
37 |
my $input = new WebPAC::Input::ISI( |
38 |
path => '/path/to/ISI/records.txt' |
39 |
filter => sub { |
40 |
my ($l,$field_nr) = @_; |
41 |
# do something with $l which is line of input file |
42 |
return $l; |
43 |
}, |
44 |
} |
45 |
|
46 |
Options: |
47 |
|
48 |
=over 4 |
49 |
|
50 |
=item path |
51 |
|
52 |
path to ISI export file |
53 |
|
54 |
=back |
55 |
|
56 |
=cut |
57 |
|
58 |
my $subfields = { |
59 |
'CR' => sub { |
60 |
my $full_cr = shift; |
61 |
my @v = split(/, /, $full_cr); |
62 |
my $f = { full => $full_cr }; |
63 |
foreach ( qw/author year reference volume page doi/ ) { |
64 |
if ( my $tmp = shift @v ) { |
65 |
$f->{$_} = $tmp; |
66 |
} |
67 |
} |
68 |
if ( $f->{author} =~ /^\*(.+)/ ) { |
69 |
delete $f->{author}; |
70 |
$f->{institution} = $1; |
71 |
} |
72 |
$f->{doi} =~ s{DOI\s+}{} if $f->{doi}; # strip DOI prefix |
73 |
return $f; |
74 |
}, |
75 |
}; |
76 |
|
77 |
sub new { |
78 |
my $class = shift; |
79 |
my $self = {@_}; |
80 |
bless($self, $class); |
81 |
|
82 |
my $arg = {@_}; |
83 |
|
84 |
open( my $fh, '<', $arg->{path} ) || confess "can't open $arg->{path}: $!"; |
85 |
|
86 |
my ( $format, $version ); |
87 |
|
88 |
my $line = <$fh>; |
89 |
chomp($line); |
90 |
if ( $line =~ /^FN\s(.+)$/) { |
91 |
$format = $1; |
92 |
} else { |
93 |
die "first line of $arg->{path} has to be FN, but is: $line"; |
94 |
} |
95 |
|
96 |
$line = <$fh>; |
97 |
chomp($line); |
98 |
if ( $line =~ /^VR\s(.+)$/) { |
99 |
$version = $1; |
100 |
} else { |
101 |
die "second line of $arg->{path} has to be VN, but is: $line"; |
102 |
} |
103 |
|
104 |
warn "I: $arg->{path} $format $version - generating record offsets\n"; |
105 |
|
106 |
$self->{fh} = $fh; |
107 |
$self->{record_offset} = []; |
108 |
|
109 |
while( $line = <$fh> ) { |
110 |
chomp($line); |
111 |
next unless $line eq 'ER'; |
112 |
push @{ $self->{record_offset} }, tell($fh); |
113 |
last if $#{ $self->{record_offset} } > $self->{offset} + $self->{limit}; |
114 |
} |
115 |
push @{ $self->{record_offset} }, tell($fh); # end of file |
116 |
|
117 |
warn "I $arg->{path} read ", tell($fh), " bytes $#{ $self->{record_offset} } records\n"; |
118 |
|
119 |
return $self; |
120 |
} |
121 |
|
122 |
|
123 |
|
124 |
=head2 fetch_rec |
125 |
|
126 |
Return record with ID C<$mfn> from database |
127 |
|
128 |
my $rec = $input->fetch_rec( $mfn, $filter_coderef ); |
129 |
|
130 |
=cut |
131 |
|
132 |
sub fetch_rec { |
133 |
my ( $self, $mfn, $filter_coderef ) = @_; |
134 |
|
135 |
seek $self->{fh}, $self->{record_offset}->[ $mfn - 1 ], 0; |
136 |
|
137 |
my $tag; |
138 |
my $rec; |
139 |
|
140 |
my $fh = $self->{fh}; |
141 |
|
142 |
while( my $line = <$fh> ) { |
143 |
chomp($line); |
144 |
my $v; |
145 |
|
146 |
if ( $line eq 'EF' ) { |
147 |
return; |
148 |
} elsif ( $line eq 'ER' ) { |
149 |
|
150 |
$line = <$fh>; |
151 |
chomp $line; |
152 |
die "expected blank like in ",$self->{path}, " +$.: $line" unless $line eq ''; |
153 |
|
154 |
# join tags |
155 |
foreach ( qw/AB DE ID TI SO RP SC FU FX PA JI/ ) { |
156 |
$rec->{$_} = join(' ', @{ $rec->{$_} }) if defined $rec->{$_}; |
157 |
} |
158 |
|
159 |
# split on ; |
160 |
foreach ( qw/ID SC DE/ ) { |
161 |
$rec->{$_} = [ split(/;\s/, $rec->{$_}) ] if defined $rec->{$_}; |
162 |
} |
163 |
|
164 |
$rec->{'000'} = [ $mfn ]; |
165 |
warn "## mfn $mfn" if $debug; |
166 |
return $rec; |
167 |
|
168 |
} elsif ( $line =~ /^(\S\S)\s(.+)$/ ) { |
169 |
$tag = $1; |
170 |
$v = $2; |
171 |
} elsif ( $line =~ /^\s{3}(.+)$/ ) { |
172 |
$v = $1; |
173 |
if ( $tag eq 'CR' && $v =~ m{DOI$} ) { |
174 |
my $doi = <$fh>; |
175 |
chomp($doi); |
176 |
$doi =~ s{^\s{3}}{ } || die "can't find DOI in: $doi"; |
177 |
$v .= $doi; |
178 |
} |
179 |
} elsif ( $line =~ m{^(\S\S)\s*$} ) { |
180 |
warn "# $self->{path} +$. empty |$line|\n"; |
181 |
} elsif ( $line ne '' ) { |
182 |
warn "E: $self->{path} +$ | can't parse |$line|"; |
183 |
} |
184 |
|
185 |
if ( defined $v ) { |
186 |
$v = $subfields->{$tag}->($v) if defined $subfields->{$tag}; |
187 |
|
188 |
warn "## $tag: ", sub { dump( $v ) } if $debug; |
189 |
push @{ $rec->{$tag} }, $v; |
190 |
} |
191 |
} |
192 |
|
193 |
warn "can't get full record $mfn got ", dump $rec; |
194 |
return $rec; |
195 |
} |
196 |
|
197 |
|
198 |
=head2 size |
199 |
|
200 |
Return number of records in database |
201 |
|
202 |
my $size = $input->size; |
203 |
|
204 |
=cut |
205 |
|
206 |
sub size { |
207 |
my $self = shift; |
208 |
$#{ $self->{record_offset} } - $self->{offset}; |
209 |
# no need for +1 since we record end of file as last record |
210 |
} |
211 |
|
212 |
|
213 |
=head1 AUTHOR |
214 |
|
215 |
Dobrica Pavlinusic, C<< <dpavlin@rot13.org> >> |
216 |
|
217 |
=head1 COPYRIGHT & LICENSE |
218 |
|
219 |
Copyright 2009 Dobrica Pavlinusic, All Rights Reserved. |
220 |
|
221 |
This program is free software; you can redistribute it and/or modify it |
222 |
under the same terms as Perl itself. |
223 |
|
224 |
=cut |
225 |
|
226 |
1; # End of WebPAC::Input::ISI |