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Annotation of /SubsystemEditor/WebPage/ShowSubsystem.pm

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1 : bartels 1.1 package SubsystemEditor::WebPage::ShowSubsystem;
2 :    
3 :     use strict;
4 :     use warnings;
5 :     use URI::Escape;
6 :     use HTML;
7 :     use Data::Dumper;
8 :    
9 :     use FIG;
10 :    
11 :     use base qw( WebPage );
12 :    
13 :     1;
14 :    
15 : bartels 1.2 ##############################################################
16 :     # Method for registering components etc. for the application #
17 :     ##############################################################
18 : bartels 1.1 sub init {
19 :     my ( $self ) = @_;
20 :    
21 : bartels 1.2 $self->application->register_component( 'Table', 'sstable' );
22 : bartels 1.12 $self->application->register_component( 'Table', 'VarDescTable' );
23 : bartels 1.2 }
24 :    
25 :     #################################
26 :     # File where Javascript resides #
27 :     #################################
28 :     sub require_javascript {
29 :    
30 :     return [ './Html/showfunctionalroles.js' ];
31 :    
32 : bartels 1.1 }
33 :    
34 :     ##############################################
35 :     # Website content is returned by this method #
36 :     ##############################################
37 :     sub output {
38 :     my ( $self ) = @_;
39 : bartels 1.2
40 : bartels 1.25 my $fig = $self->application->data_handle( 'FIG' );
41 : bartels 1.1 my $cgi = $self->application->cgi;
42 :    
43 : bartels 1.2 # subsystem name and 'nice name' #
44 : bartels 1.1 my $name = $cgi->param( 'subsystem' );
45 : bartels 1.27 $name = uri_unescape( $name );
46 :     $name =~ s/&#39/'/g;
47 : bartels 1.1 my $ssname = $name;
48 :     $ssname =~ s/\_/ /g;
49 :    
50 : bartels 1.2 # look if someone is logged in and can write the subsystem #
51 :     my $can_alter = 0;
52 :     my $user = $self->application->session->user;
53 : bartels 1.4
54 : paczian 1.22 my $dbmaster = $self->application->dbmaster;
55 :     my $ppoapplication = $self->application->backend;
56 : bartels 1.4
57 :     # get a seeduser #
58 :     my $seeduser = '';
59 :     if ( defined( $user ) && ref( $user ) ) {
60 :     my $preferences = $dbmaster->Preferences->get_objects( { user => $user,
61 :     name => 'SeedUser',
62 :     application => $ppoapplication } );
63 :     if ( defined( $preferences->[0] ) ) {
64 :     $seeduser = $preferences->[0]->value();
65 :     }
66 :     }
67 :    
68 : bartels 1.6 if ( $user ) {
69 :     if ( $user->has_right( $self->application, 'edit', 'subsystem', $name ) ) {
70 :     $can_alter = 1;
71 :     $fig->set_user( $seeduser );
72 :     }
73 :     else {
74 :     # we might have the problem that the user has not yet got the right for editing the
75 :     # subsystem due to that it was created in the old seed or what do I know where.
76 :     my $curatorOfSS = $fig->subsystem_curator( $name );
77 : bartels 1.7 my $su = lc( $seeduser );
78 :     my $cu = lc( $curatorOfSS );
79 :     if ( $su eq $cu ) {
80 : bartels 1.6 # now set the rights...
81 :     my $right = $dbmaster->Rights->create( { name => 'edit',
82 :     scope => $user->get_user_scope,
83 :     data_type => 'subsystem',
84 :     data_id => $name,
85 :     granted => 1,
86 :     delegated => 0 } );
87 :     if ( $right ) {
88 :     $can_alter = 1;
89 :     $fig->set_user( $seeduser );
90 :     }
91 :     }
92 :     }
93 : bartels 1.2 }
94 : bartels 1.6
95 : bartels 1.1 ######################
96 :     # Construct the menu #
97 :     ######################
98 :    
99 :     my $menu = $self->application->menu();
100 :    
101 : bartels 1.15 my $esc_name = uri_escape($name);
102 :    
103 : bartels 1.1 # Build nice tab menu here
104 : bartels 1.15 $menu->add_category( 'Subsystem Info', "SubsysEditor.cgi?page=ShowSubsystem&subsystem=$esc_name" );
105 :     $menu->add_category( 'Functional Roles', "SubsysEditor.cgi?page=ShowFunctionalRoles&subsystem=$esc_name" );
106 : bartels 1.21 $menu->add_category( 'Subsets', "SubsysEditor.cgi?page=ShowSubsets&subsystem=$esc_name" );
107 : bartels 1.15 $menu->add_category( 'Diagram', "SubsysEditor.cgi?page=ShowDiagram&subsystem=$esc_name" );
108 :     $menu->add_category( 'Illustrations', "SubsysEditor.cgi?page=ShowIllustrations&subsystem=$esc_name" );
109 :     $menu->add_category( 'Spreadsheet', "SubsysEditor.cgi?page=ShowSpreadsheet&subsystem=$esc_name" );
110 :     $menu->add_category( 'Show Check', "SubsysEditor.cgi?page=ShowCheck&subsystem=$esc_name" );
111 :     $menu->add_category( 'Show Connections', "SubsysEditor.cgi?page=ShowTree&subsystem=$esc_name" );
112 : bartels 1.1
113 :    
114 :     ##############################
115 :     # Construct the page content #
116 :     ##############################
117 :    
118 : bartels 1.2 my $content = qq~
119 :     <STYLE>
120 :     .hideme {
121 :     display: none;
122 :     }
123 :     .showme {
124 :     display: all;
125 :     }
126 :     </STYLE>
127 :     ~;
128 :    
129 :     $content .= "<H2>Subsystem Info</H2>";
130 :     my $subsystem = new Subsystem( $name, $fig, 0 );
131 :    
132 :     if ( defined( $cgi->param( 'SUBMIT' ) ) ) {
133 :    
134 :     # set description and notes
135 :     my $descrp = $cgi->param( 'SSDESC' );
136 :     chomp $descrp;
137 :     $descrp .= "\n";
138 :     $subsystem->set_description( $descrp );
139 :     my $notes = $cgi->param( 'SSNOTES' );
140 :     chomp $notes;
141 :     $notes .= "\n";
142 :     $subsystem->set_notes( $notes );
143 :    
144 :     my $class1 = '';
145 :     my $class2 = '';
146 :    
147 :     if ( defined( $cgi->param( 'Classification' ) ) ) {
148 :     if ( $cgi->param( 'Classification' ) eq 'User-defined' ) {
149 :     if ( defined( $cgi->param( "SUBSYSH1TF" ) ) ) {
150 :     $class1 = $cgi->param( "SUBSYSH1TF" );
151 :     }
152 :     }
153 :     else {
154 :     if ( defined( $cgi->param( "SUBSYSH1" ) ) ) {
155 :     $class1 = $cgi->param( "SUBSYSH1" );
156 :     }
157 :     }
158 :     }
159 :    
160 :     if ( defined( $cgi->param( 'Classification' ) ) ) {
161 :     if ( $cgi->param( 'Classification' ) eq 'User-defined' ) {
162 :     if ( defined( $cgi->param( "SUBSYSH2TF" ) ) ) {
163 :     $class2 = $cgi->param( "SUBSYSH2TF" );
164 :     }
165 :     }
166 :     else {
167 :     if ( defined( $cgi->param( "SUBSYSH2" ) ) ) {
168 :     $class2 = $cgi->param( "SUBSYSH2" );
169 :     }
170 :     }
171 :     }
172 :     $subsystem->set_classification( [ $class1, $class2 ] );
173 :    
174 : bartels 1.10 my $litstoset = $cgi->param( 'SUBSYSLIT' );
175 : bartels 1.23 $litstoset =~ s/ //g;
176 :     my @lits = split( ',', $litstoset );
177 : bartels 1.10 setLiteratures( $fig, $name, \@lits );
178 :    
179 : bartels 1.13 my $wlstoset = $cgi->param( 'SUBSYSWL' );
180 :     if ( defined( $wlstoset ) && $wlstoset =~ /.+\s+.+/ ) {
181 :     my @wls = split( '\n', $wlstoset );
182 :     setWeblinks( $fig, $name, \@wls );
183 :     }
184 :    
185 : bartels 1.2 # here we really edit the files in the subsystem directory #
186 :     $subsystem->incr_version();
187 :     $subsystem->db_sync();
188 :     $subsystem->write_subsystem();
189 :     }
190 : bartels 1.25 elsif ( defined( $cgi->param( 'GrantRightButton' ) ) ) {
191 :     if ( $can_alter && $user->has_right( undef, 'edit', 'subsystem', $name, 1 ) ) {
192 :     my $newAnno = $cgi->param( 'ANNOBOX' );
193 : bartels 1.27 my $thisUsers = $dbmaster->User->get_objects( { login => $newAnno } );
194 :     if ( defined( $thisUsers->[0] ) ) {
195 :    
196 : bartels 1.25 my $rights = $dbmaster->Rights->get_objects( { name => 'edit',
197 :     data_type => 'subsystem',
198 :     data_id => $name,
199 : bartels 1.27 scope => $thisUsers->[0]->get_user_scope() } );
200 : bartels 1.25 if ( defined( $rights->[0] ) ) {
201 :     $self->application->add_message( 'warning', "User $newAnno already has the right to edit this subsystem." );
202 :     }
203 :     else {
204 :     my $right = $dbmaster->Rights->create( { granted => 1,
205 :     delegated => 1,
206 :     name => 'edit',
207 :     data_type => 'subsystem',
208 :     data_id => $name,
209 : bartels 1.27 scope => $thisUsers->[0]->get_user_scope() } );
210 : bartels 1.25 if ( $right ) {
211 :     $self->application->add_message( 'info', "$newAnno can now edit this subsystem" );
212 :     }
213 :     else {
214 :     $self->application->add_message( 'warning', "Could not create right to edit the subsystem for user $newAnno" );
215 :     }
216 :     }
217 :     }
218 :     }
219 :     else {
220 :     $self->application->add_message( 'warning', "You do not have the right to share the subsystem." );
221 :     }
222 :     }
223 :     elsif ( defined( $cgi->param( 'RevokeRightButton' ) ) ) {
224 :     if ( $can_alter && $user->has_right( undef, 'edit', 'subsystem', $name, 1 ) ) {
225 :     my $newAnno = $cgi->param( 'ALANNOBOX' );
226 : bartels 1.27 my $thisUsers = $dbmaster->User->get_objects( { login => $newAnno } );
227 : bartels 1.25 my $rights = $dbmaster->Rights->get_objects( { name => 'edit',
228 :     data_type => 'subsystem',
229 :     data_id => $name,
230 : bartels 1.27 scope => $thisUsers->[0]->get_user_scope() } );
231 : bartels 1.25
232 :     my $thisRight = $rights->[0];
233 :     if ( defined( $thisRight ) && $thisRight->delegated ) {
234 :     $thisRight->delete();
235 :    
236 :     $self->application->add_message( 'info', "$newAnno cannot edit this subsystem any more." );
237 :     }
238 :     else {
239 :     $self->application->add_message( 'warning', "You can't revoke the right of $newAnno to edit this subsystem." );
240 :     }
241 :     }
242 :     else {
243 :     $self->application->add_message( 'warning', "You do not have the right to revoke rights for this subsystem." );
244 :     }
245 :     }
246 : bartels 1.1
247 : bartels 1.2 $subsystem = new Subsystem( $name, $fig, 0 );
248 :    
249 :     $content .= $self->start_form( 'form', { subsystem => $name } );
250 :    
251 : bartels 1.1 my ( $ssversion, $sscurator, $pedigree, $ssroles ) = $fig->subsystem_info( $name );
252 : bartels 1.3
253 :     my $versionlink = '';
254 : bartels 1.5
255 : bartels 1.3 if ( $can_alter ) {
256 : bartels 1.16 $versionlink = " -- <A HREF='".$self->application->url()."?page=ResetSubsystem&subsystem=$esc_name'>Reset to Previous Timestamp</A>";
257 : bartels 1.3 }
258 :    
259 : bartels 1.1 my $mod_time = get_mod_time( $name );
260 :     my $class = $fig->subsystem_classification( $name );
261 :     my $ssnotes = $subsystem->get_notes();
262 :    
263 : bartels 1.2 if ( !defined( $ssnotes ) ) {
264 :     $ssnotes = '';
265 :     }
266 :     my $ssdesc = $subsystem->get_description();
267 :    
268 :     if ( !defined( $ssdesc ) ) {
269 :     $ssdesc = '';
270 :     }
271 :    
272 :     my $classification_stuff;
273 :     if ( $can_alter ) {
274 :     $classification_stuff = get_classification_boxes( $fig, $cgi, $class->[0], $class->[1] );
275 :     }
276 :     else {
277 :     $classification_stuff = "<TR><TH>Classification:</TH><TD>$class->[0]</TD></TR>";
278 :     $classification_stuff .= "<TR><TH></TH><TD>$class->[1]</TD></TR>";
279 :     }
280 : bartels 1.1
281 : bartels 1.11 my $infotable = "<TABLE><TR><TH>Name:</TH><TD>$ssname</TD></TR>";
282 : bartels 1.1 $infotable .= "<TR><TH>Author:</TH><TD>$sscurator</TD></TR>";
283 : paczian 1.28 if ( $can_alter && $user->has_right( undef, 'edit', 'subsystem', $name, 1 ) && !$self->application->{anonymous_mode}) {
284 : bartels 1.25
285 :     my $annoGrp = $dbmaster->Scope->get_objects( { name => 'Annotators' } );
286 :     my $annoScope = $dbmaster->UserHasScope->get_objects( { scope => $annoGrp->[0] } );
287 :     my $annoMems = [];
288 :     foreach my $aS ( @$annoScope ) {
289 :     push @$annoMems, $aS->user();
290 :     }
291 :     @$annoMems = sort { $a->lastname cmp $b->lastname || $a->firstname cmp $b->firstname } @$annoMems;
292 :    
293 :     my $editRightButton = "<INPUT TYPE=SUBMIT ID='GrantRightButton' NAME='GrantRightButton' VALUE='Grant Right'>";
294 :     my $revokeRightButton = "<INPUT TYPE=SUBMIT ID='RevokeRightButton' NAME='RevokeRightButton' VALUE='Revoke Right'>";
295 :    
296 :     my $annotatorsBox = "<SELECT NAME='ANNOBOX' ID='ANNOBOX'>";
297 :     my $alreadyAnnotatorsBox = "<SELECT NAME='ALANNOBOX' ID='ALANNOBOX'>";
298 :     foreach my $a ( @$annoMems ) {
299 :     unless ( $a->has_right( undef, 'edit', 'subsystem', $name ) ) {
300 :     $annotatorsBox .= "<OPTION VALUE='".$a->login."'>".$a->firstname.' '.$a->lastname.' ( '.$a->login." )</OPTION>";
301 :     }
302 :     else {
303 :     if ( $a->login() ne $user->login() && ( ! $a->has_right( undef, 'edit', 'subsystem', '*' ) ) ) {
304 :     $alreadyAnnotatorsBox .= "<OPTION VALUE='".$a->login."'>".$a->firstname.' '.$a->lastname.' ( '.$a->login." )</OPTION>";
305 :     }
306 :     }
307 :     }
308 :     $annotatorsBox .= "</SELECT>";
309 :     $alreadyAnnotatorsBox .= "</SELECT>";
310 :    
311 :     $infotable .= "<TR><TH>Grant Right To Edit To:</TH><TD>$annotatorsBox $editRightButton</TD></TR>";
312 :     $infotable .= "<TR><TH>Revoke Right To Edit From:</TH><TD>$alreadyAnnotatorsBox $revokeRightButton</TD></TR>";
313 :     }
314 : bartels 1.3 $infotable .= "<TR><TH>Version:</TH><TD>$ssversion $versionlink</TD></TR>";
315 : bartels 1.1 $infotable .= "<TR><TH>Last Modified:</TH><TD>$mod_time</TD></TR>";
316 : bartels 1.10
317 : bartels 1.13 # Literature #
318 : bartels 1.10 my $lit = getLiteratures( $fig, $name );
319 :     my $litstring = '';
320 :     my $litvoid = '';
321 :     if ( defined( $lit ) && scalar( @$lit ) > 0 ) {
322 :     my @litlinks;
323 :     foreach my $l ( @$lit ) {
324 :     my $thislink = "<a href=\"javascript:void(0)\"onclick=\"window.open('http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=retrieve&db=pubmed&list_uids=" . $l ."')\">$l</a>";
325 :     push @litlinks, $thislink;
326 :     }
327 :     $litstring = join( ', ', @litlinks );
328 :     $litvoid = join( ', ', @$lit );
329 :     }
330 :    
331 : bartels 1.13 # Weblinks #
332 :     my ( $wl, $wlvoid ) = getLinks( $fig, $name );
333 :    
334 : bartels 1.12 my $variants = $subsystem->get_variants();
335 :    
336 : bartels 1.2 if ( $can_alter ) {
337 : bartels 1.10
338 :     my $editLitButton = "<INPUT TYPE=BUTTON ID='EditLitButton' VALUE='Edit Literature' ONCLICK='MakeEditableLit( \"0\" );'><INPUT TYPE=BUTTON ID='ShowLitButton' VALUE='Show Links' STYLE='display: none;' ONCLICK='MakeEditableLit( \"1\" );'>";
339 : bartels 1.13 my $editWLButton = "<INPUT TYPE=BUTTON ID='EditWLButton' VALUE='Edit Weblinks' ONCLICK='MakeEditableWL( \"0\" );'><INPUT TYPE=BUTTON ID='ShowWLButton' VALUE='Show Weblinks' STYLE='display: none;' ONCLICK='MakeEditableWL( \"1\" );'>";
340 :    
341 : bartels 1.10 $infotable .= "<TR><TH>Literature</TH><TD><TABLE><TR><TD><SPAN ID='LitSpan'>$litstring</SPAN></TD><TD>$editLitButton</TD><TD><INPUT TYPE=TEXT STYLE='width: 200px; display: none;' NAME='SUBSYSLIT' ID='SUBSYSLIT' VALUE='$litvoid'></TD><TD><SPAN ID='TEXTSPAN' STYLE='display: none;'>Multiple PMIDs should be separated by \', \'</SPAN></TD></TR></TABLE></TD></TR>";
342 : bartels 1.13 $infotable .= "<TR><TH>Websites</TH><TD><TABLE><TR><TD><SPAN ID='WLSpan'>$wl</SPAN></TD><TD>$editWLButton</TD><TD><TEXTAREA ROWS=3 STYLE='width: 400px; display: none;' NAME='SUBSYSWL' ID='SUBSYSWL'>$wlvoid</TEXTAREA></TD><TD><SPAN ID='AREASPAN' STYLE='display: none;'>Please use the following format:<BR>Description1 http://www.xyz.org/...<BR>Description2 http://www.xzy.de/...</SPAN></TD></TR></TABLE></TD></TR>";
343 : bartels 1.19 $infotable .= "<TR><TH>Description</TH><TD><TEXTAREA NAME='SSDESC' ROWS=15 STYLE='width: 772px;'>$ssdesc</TEXTAREA></TD></TR>";
344 :     $infotable .= "<TR><TH>Notes</TH><TD><TEXTAREA NAME='SSNOTES' ROWS=15 STYLE='width: 772px;'>$ssnotes</TEXTAREA></TD></TR>";
345 : bartels 1.2 }
346 :     else {
347 :     # do a little formating because the notes often contain many many blanks and newlines
348 :     my $ssdesc_brs = $ssdesc;
349 :     $ssdesc_brs =~ s/\n/<BR>/g;
350 :     $ssdesc_brs =~ s/(\n\s)+/\n/g;
351 :     my $ssnotes_brs = $ssnotes;
352 :     $ssnotes_brs =~ s/(\n\s)+/\n/g;
353 :     $ssnotes_brs =~ s/\n/<BR>/g;
354 : bartels 1.11 $infotable .= "<TR><TH>Literature</TH><TD>$litstring</TD></TR>";
355 : bartels 1.14 $infotable .= "<TR><TH>Websites</TH><TD>$wl</TD></TR>";
356 : bartels 1.2 $infotable .= "<TR><TH>Description</TH><TD>$ssdesc_brs</TD></TR>";
357 :     $infotable .= "<TR><TH>Notes</TH><TD>$ssnotes_brs</TD></TR>";
358 :     }
359 : bartels 1.12 # variants
360 :     my $vartable = $self->application->component( 'VarDescTable' );
361 :     $vartable->columns( [ { name => "Variant" }, { name => "Description" } ] );
362 :    
363 :     my $vardata;
364 :     my $has_variants = 0;
365 :     foreach my $kv ( sort keys %$variants ) {
366 :     $has_variants = 1;
367 :     push @$vardata, [ $kv, $variants->{ $kv } ];
368 :     }
369 :     $vartable->data( $vardata );
370 :     $infotable .= "<TR><TH>Variants</TH><TD>";
371 :     if ( $has_variants ) {
372 :     $infotable .= $vartable->output();
373 :     }
374 :    
375 :     if ( $can_alter ) {
376 :     my $variant_outside = "<INPUT TYPE=BUTTON VALUE='Edit Variants in Variant Overview' NAME='EditVariantsOverview' ID='EditVariantsOverview' ONCLICK='window.open( \"".$self->application->url()."?page=ShowVariants&subsystem=$name\" )'>";
377 :     $infotable .= $variant_outside;
378 :     }
379 :    
380 :     $infotable .= "</TD</TR>";
381 :    
382 : bartels 1.2 $infotable .= $classification_stuff;
383 : bartels 1.1 $infotable .= "</TABLE>";
384 :    
385 : bartels 1.2 if ( $can_alter ) {
386 : bartels 1.20 $infotable .= "<INPUT TYPE=SUBMIT VALUE='Save Changes' ID='SUBMIT' NAME='SUBMIT' STYLE='background-color: red;'>";
387 : bartels 1.2 }
388 :    
389 : bartels 1.20 if ( $can_alter ) {
390 :     $content .= "<INPUT TYPE=SUBMIT VALUE='Save Changes' ID='SUBMIT' NAME='SUBMIT' STYLE='background-color: red;'>";
391 :     }
392 : bartels 1.1 $content .= $infotable;
393 : bartels 1.2 $content .= $self->end_form();
394 : bartels 1.1
395 :     return $content;
396 :     }
397 :    
398 :    
399 :     sub get_mod_time {
400 :    
401 :     my ( $ssa, $fig ) = @_;
402 :    
403 :     my( $t, @spreadsheets );
404 :     if ( opendir( BACKUP, "$FIG_Config::data/Subsystems/$ssa/Backup" ) ) {
405 :    
406 :     @spreadsheets = sort { $b <=> $a }
407 :     map { $_ =~ /^spreadsheet.(\d+)/; $1 }
408 :     grep { $_ =~ /^spreadsheet/ }
409 :     readdir(BACKUP);
410 :     closedir(BACKUP);
411 :    
412 :     if ( $t = shift @spreadsheets ) {
413 :     my $last_modified = &FIG::epoch_to_readable( $t );
414 :     return $last_modified;
415 :     }
416 :     }
417 : bartels 1.2 return "$FIG_Config::data/Subsystems/$ssa/Backup";
418 :     }
419 :    
420 :    
421 :     sub get_classification_boxes {
422 :     my ( $fig, $cgi, $class1, $class2 ) = @_;
423 :     my $classified = 1;
424 :    
425 :     my $sdContent = '';
426 :     my $SUBSYSH1 = $class1;
427 :     my $SUBSYSH2 = $class2;
428 :    
429 :     # variables that monitor if we have selected a box
430 :     my $putinh1 = 0;
431 :     my $putinh2 = 0;
432 :    
433 :     if ( !defined( $SUBSYSH1 ) ){
434 :     $putinh1 = 1;
435 :     }
436 :     if ( !defined( $SUBSYSH2 ) ){
437 :     $putinh2 = 1;
438 :     }
439 :    
440 :     my $inh1 = '';
441 :     if ( defined( $cgi->param( 'SUBSYSH1TF' ) ) ) {
442 :     $inh1 = $cgi->param( 'SUBSYSH1TF' );
443 :     }
444 :     elsif ( defined( $SUBSYSH1 ) ) {
445 :     if ( !$putinh1 ) {
446 :     $inh1 = $SUBSYSH1;
447 :     }
448 :     }
449 :     my $inh2 = '';
450 :     if ( defined( $cgi->param( 'SUBSYSH2TF' ) ) ) {
451 :     $inh2 = $cgi->param( 'SUBSYSH2TF' );
452 :     }
453 :     elsif ( defined( $SUBSYSH2 ) ) {
454 :     if ( !$putinh2 ) {
455 :     $inh2 = $SUBSYSH2;
456 :     }
457 :     }
458 :    
459 :     my @ssclassifications = $fig->all_subsystem_classifications();
460 :     my $ssclass;
461 :     foreach my $ssc ( @ssclassifications ) {
462 : bartels 1.24 if ( !defined( $ssc->[1] ) ) {
463 :     $ssc->[1] = '';
464 :     }
465 :     # next if ( ( !defined( $ssc->[0] ) ) || ( !defined( $ssc->[1] ) ) );
466 :     next if ( !defined( $ssc->[0] ) );
467 :     next if ( $ssc->[0] eq '' );
468 :     # next if ( ( $ssc->[0] eq '' ) || ( $ssc->[1] eq '' ) );
469 : bartels 1.2 next if ( ( $ssc->[0] =~ /^\s+$/ ) || ( $ssc->[1] =~ /^\s+$/ ) );
470 :     push @{ $ssclass->{ $ssc->[0] } }, $ssc->[1];
471 :     }
472 :    
473 :    
474 :     my @options;
475 :     foreach my $firstc ( keys %$ssclass ) {
476 :     my $opt = "<SELECT SIZE=5 ID='$firstc' NAME='SUBSYSH2' STYLE='width: 386px;' class='hideme'>";
477 :     my $optstring = '';
478 :     foreach my $secc ( sort @{ $ssclass->{ $firstc } } ) {
479 : bartels 1.8 if ( defined( $SUBSYSH2 ) && $SUBSYSH2 eq $secc && $SUBSYSH1 eq $firstc ) {
480 : bartels 1.2 $optstring .= "<OPTION SELECTED VALUE='$secc'>$secc</OPTION>";
481 :     # we have to show the selectbox if there is a selected value
482 :     $opt = "<SELECT SIZE=5 ID='$firstc' NAME='SUBSYSH2' STYLE='width: 386px;' class='showme'>";
483 :     $putinh2 = 1;
484 :     }
485 :     else {
486 :     $optstring .= "<OPTION VALUE='$secc'>$secc</OPTION>";
487 :     }
488 :     }
489 :     $opt .= $optstring;
490 :     $opt .= "</SELECT>";
491 :     push @options, $opt;
492 :     }
493 :    
494 :     if ( $classified ) {
495 :     $sdContent .= "<TR><TH><INPUT TYPE=\"RADIO\" NAME=\"Classification\" VALUE=\"Classified\" CHECKED onchange='radioclassification();'>Classification:</TH><TD><SELECT SIZE=5 ID='SUBSYSH1' NAME='SUBSYSH1' STYLE='width: 386px;' onclick='gethiddenoption();'>";
496 :     }
497 :     else {
498 :     $sdContent .= "<TR><TD><INPUT TYPE=\"RADIO\" NAME=\"Classification\" VALUE=\"Classified\" onchange='radioclassification();'>Classification:</TD><TD><SELECT SIZE=5 ID='SUBSYSH1' NAME='SUBSYSH1' STYLE='width: 386px;' onclick='gethiddenoption();' DISABLED=DISABLED>";
499 :     }
500 :     foreach my $firstc ( sort keys %$ssclass ) {
501 :     if ( defined( $SUBSYSH1 ) && $SUBSYSH1 eq $firstc ) {
502 :     $sdContent .= "\n<OPTION SELECTED VALUE='$firstc'>$firstc</OPTION>\n";
503 :     $putinh1 = 1;
504 :     }
505 :     else {
506 :     $sdContent .= "\n<OPTION VALUE='$firstc'>$firstc</OPTION>\n";
507 :     }
508 :     }
509 :     $sdContent .= "</SELECT>";
510 :    
511 :     foreach my $opt ( @options ) {
512 :     $sdContent .= $opt;
513 :     }
514 :    
515 :     $sdContent .= "</TD></TR>";
516 :     if ( $classified ) {
517 :     $sdContent .= "<TR><TH><INPUT TYPE=\"RADIO\" NAME=\"Classification\" VALUE=\"User-defined\" onchange='radioclassification();'>User-defined:</TH><TD><INPUT TYPE=TEXT STYLE='width: 386px;' NAME='SUBSYSH1TF' ID='SUBSYSH1TF' VALUE='' DISABLED=\"DISABLED\"><INPUT TYPE=TEXT STYLE='width: 386px;' NAME='SUBSYSH2TF' ID='SUBSYSH2TF' VALUE='' DISABLED=DISABLED></TD></TR>";
518 :     }
519 :     else {
520 :     $sdContent .= "<TR><TH><INPUT TYPE=\"RADIO\" NAME=\"Classification\" VALUE=\"User-defined\" CHECKED onchange='radioclassification();'>User-defined:</TH><TD><INPUT TYPE=TEXT STYLE='width: 386px;' NAME='SUBSYSH1TF' ID='SUBSYSH1TF' VALUE='$inh1'><INPUT TYPE=TEXT STYLE='width: 386px;' NAME='SUBSYSH2TF' ID='SUBSYSH2TF' VALUE='$inh2'></TD></TR>";
521 :     }
522 :    
523 :    
524 :     return $sdContent;
525 :     }
526 :    
527 : bartels 1.10 ########################################
528 :     # get Literature-string for subsystems #
529 :     ########################################
530 :     sub getLiteratures {
531 :     my ( $fig, $name ) = @_;
532 :    
533 : bartels 1.15 my $esc_name = uri_escape($name);
534 :    
535 : bartels 1.10 my $frpubs;
536 : bartels 1.17 my @rel_lit_num = $fig->get_attributes( 'Subsystem:'.$name, "SUBSYSTEM_PUBMED_RELEVANT" );
537 : bartels 1.10
538 :     foreach my $k ( @rel_lit_num ) {
539 :     my ( $ss, $key, $value ) = @$k;
540 :     push @$frpubs, $value;
541 :     }
542 :    
543 :     return $frpubs;
544 :     }
545 :    
546 : bartels 1.13 ######################################
547 :     # get Weblinks-string for subsystems #
548 :     ######################################
549 :     sub getLinks {
550 :     my ( $fig, $name ) = @_;
551 :    
552 : bartels 1.15 my $esc_name = uri_escape($name);
553 :    
554 : bartels 1.13 my $links;
555 :     my $linksstring = '';
556 :     my $linksvoid = '';
557 : bartels 1.17 my @rel_link_num = $fig->get_attributes( 'Subsystem:'.$name, "SUBSYSTEM_WEBLINKS" );
558 : bartels 1.13
559 :     foreach my $k ( @rel_link_num ) {
560 :     my ( $ss, $key, @value ) = @$k;
561 :     $linksstring .= $value[0].": <a href=\"javascript:void(0)\"onclick=\"window.open('".$value[1]."','height=640,width=800,scrollbars=yes,toolbar=yes,status=yes')\">". $value[1]."</a><BR>";
562 :     $linksvoid .= $value[0]." ".$value[1]."\n";
563 :     }
564 :    
565 :     return ( $linksstring, $linksvoid );
566 :     }
567 :    
568 : bartels 1.10 ########################################
569 :     # set Literature-string for subsystems #
570 :     ########################################
571 :     sub setLiteratures {
572 :     my ( $fig, $name, $newpubs ) = @_;
573 :    
574 : bartels 1.15 my $esc_name = uri_escape($name);
575 :    
576 : bartels 1.10 my @values;
577 : bartels 1.17 my @rel_lit_num = $fig->get_attributes( 'Subsystem:'.$name, "SUBSYSTEM_PUBMED_RELEVANT" );
578 : bartels 1.10
579 :     foreach my $k ( @rel_lit_num ) {
580 :     my ( $ss, $key, $value ) = @$k;
581 : bartels 1.20 $fig->delete_matching_attributes( "Subsystem:$name", "SUBSYSTEM_PUBMED_RELEVANT" );
582 : bartels 1.10 }
583 :    
584 :     foreach my $np ( @$newpubs ) {
585 : bartels 1.17 $fig->add_attribute( "Subsystem:$name", "SUBSYSTEM_PUBMED_RELEVANT", $np );
586 : bartels 1.10 }
587 :     }
588 :    
589 : bartels 1.13 ########################################
590 :     # set Literature-string for subsystems #
591 :     ########################################
592 :     sub setWeblinks {
593 :     my ( $fig, $name, $newpubs ) = @_;
594 :    
595 : bartels 1.15 my $esc_name = uri_escape($name);
596 :    
597 : bartels 1.13 my @values;
598 : bartels 1.17 my @rel_lit_num = $fig->get_attributes( 'Subsystem:'.$name, "SUBSYSTEM_WEBLINKS" );
599 : bartels 1.13
600 :     foreach my $k ( @rel_lit_num ) {
601 :     my ( $ss, $key, $value ) = @$k;
602 : bartels 1.20 $fig->delete_matching_attributes( "Subsystem:$name", "SUBSYSTEM_WEBLINKS" );
603 : bartels 1.13 }
604 :    
605 :     foreach my $np ( @$newpubs ) {
606 :     my @h = split( /\s+/, $np );
607 : bartels 1.17 $fig->add_attribute( "Subsystem:$name", "SUBSYSTEM_WEBLINKS", @h );
608 : bartels 1.13 }
609 :     }
610 :    
611 : bartels 1.2 sub supported_rights {
612 :    
613 :     return [ [ 'edit', 'subsystem', '*' ] ];
614 :    
615 : bartels 1.1 }
616 : bartels 1.2

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