mason/breeders_toolbox/trial.mas

   1
   2 <%doc>
   3
   4 =head1 NAME
   5
   6 /breeders_toolbox/trial.mas - a mason component to display a trial detail page
   7
   8 =head1 AUTHOR
   9
  10 Jeremy D. Edwards
  11
  12 =cut
  13
  14 </%doc>
  15
  16 <%args>
  17 $trial_id
  18 $trial_name
  19 $breeding_program_id
  20 $breeding_program_name
  21 $location_id
  22 $location_name
  23 $year => undef
  24 $trial_type => undef
  25 $trial_type_id => undef
  26 $planting_date => undef
  27 $harvest_date => undef
  28 $trial_description => undef
  29 $user_can_modify => undef
  30 $has_plant_entries => undef
  31 $has_subplot_entries => undef
  32 $hidap_enabled => undef
  33 $folder_name => undef
  34 $folder_id => undef
  35 $plants_per_plot => undef
  36 $has_expression_atlas => undef
  37 $expression_atlas_url => undef
  38 $site_project_name => undef
  39 $trial_phenotype_files => undef
  40 $sgn_session_id => undef
  41 $user_name => undef
  42 $design_name => undef
  43 $phenotypes_fully_uploaded => undef
  44 $assayed_traits => undef
  45 $identifier_prefix => 'SGN'
  46 $main_production_site_url
  47 </%args>
  48
  49 <style>
  50
  51 @media (min-width: 1200px) {
  52     .affix {
  53         top:100px;
  54         right:0;
  55         position:fixed;
  56     }
  57 }
  58
  59 </style>
  60
  61 <& /util/import_javascript.mas, classes => [ 'jquery.iframe-post-form', 'CXGN.Trial' , 'jstree/dist/jstree', 'CXGN.BreedersToolbox.HTMLSelect', 'moment_min', 'daterangepicker' ] &>
  62
  63 <%perl>
  64   use Data::Dumper;
  65 my $start_time = time();
  66
  67 #print STDERR "Check 7 (mason) : ".(time() - $start_time)."\n";
  68
  69 </%perl>
  70
  71 <br/>
  72
  73
  74 <& /page/page_title.mas, title=>"Trial detail for ".$trial_name &>
  75
  76 <&| /page/info_section.mas, title=>"Trial details",  collapsible => 1, subtitle => '[<a id="edit_trial_details">Edit Trial Details</a>]'&>
  77
  78
  79 <div class="panel panel-default">
  80 <table class="table table-hover" >
  81
  82 <tr>
  83 <td><b>Trial Name</b></td>
  84 <td>
  85 <div id="trial_name">
  86 % if ($trial_name) {
  87 %   print "$trial_name";
  88 % } else {
  89 %   print "[No Trial Name]";
  90 % }
  91 </div>
  92 </td>
  93 </tr>
  94
  95 <tr>
  96 <td><b>Breeding Program </b></td>
  97 <td>
  98 <span id="breeding_program">
  99 % if ($breeding_program_name) {
 100 %  print "$breeding_program_name";
 101 % }
 102 % else {
 103 %  print "No Breeding Program";
 104 % }
 105 </span>
 106 </td>
 107 </tr>
 108
 109 <tr>
 110 <td><b>Trial Location</b></td>
 111 <td>
 112 <div id="trial_location">
 113 % if ($location_name) {
 114 %  print "$location_name";
 115 % } else {
 116 %  print "[No Location]";
 117 % }
 118 </div>
 119 </td>
 120 </tr>
 121
 122 <tr>
 123 <td><b>Year</b></td>
 124 <td>
 125 <div id="trial_year">
 126 % if ($year) {
 127 %  print "$year";
 128 % } else {
 129 %  print "[No Year]";
 130 % }
 131 </div>
 132 </td>
 133 </tr>
 134
 135 <tr>
 136 <td><b>Trial Type</b></td>
 137 <td>
 138 <div id="trial_type">
 139 % if ($trial_type) {
 140 %  print "$trial_type";
 141 % } else {
 142 % print "[Type not set]";
 143 % }
 144 </div>
 145 </td>
 146 </tr>
 147
 148 <tr>
 149 <td><b>Planting Date</b></td>
 150 <td>
 151 <div id="planting_date">
 152 % if ($planting_date) {
 153   <a href="/breeders/trial/<% $trial_id %>?currentDate=<% $planting_date %>" ><% $planting_date %></a>
 154 % } else {
 155 %  print "[No Planting Date]";
 156 % }
 157 </div>
 158 </td>
 159 </tr>
 160
 161 <tr>
 162 <td><b>Harvest Date</b></td>
 163 <td>
 164 <div id="harvest_date">
 165 % if ($harvest_date) {
 166   <a href="/breeders/trial/<% $trial_id %>?currentDate=<% $harvest_date %>" ><% $harvest_date %></a>
 167 % } else {
 168 %  print "[No Harvest Date]";
 169 % }
 170 </div>
 171 </td>
 172 </tr>
 173
 174 <tr><td><b>Description</b></td>
 175 <td>
 176 <div id="trial_description">
 177 % if ($trial_description) {
 178 %  print "$trial_description";
 179 % } else {
 180 %  print "[No Description]";
 181 % }
 182 </div>
 183 </td>
 184 </tr>
 185 </table>
 186 </div>
 187
 188 % my $folder_collapsed = 1;
 189 % if ($folder_id) {
 190 % $folder_collapsed = 0;
 191 % }
 192
 193 <div class="well well-sm">
 194
 195 <&| /page/info_section.mas, title=>"Folder", collaspible=>1, collapsed=>$folder_collapsed,
 196   subtitle => '[<a id="new_folder_dialog_link">New Folder</a>] | [<a id="open_folder_dialog_link">Change</a>]' &>
 197
 198   <& /breeders_toolbox/folder/folder_set.mas, breeding_program_id => $breeding_program_id, breeding_program_name =>$breeding_program_name, trial_id => $trial_id, trial_name =>$trial_name &>
 199   <& /breeders_toolbox/folder/folder_new.mas, breeding_program_id => $breeding_program_id, breeding_program_name =>$breeding_program_name &>
 200
 201   <span id="trial_folder_div"><a href="/folder/<% $folder_id %>"><% $folder_name %></a></span>
 202
 203 </&>
 204
 205 </div><!--closes well-->
 206
 207 </&>
 208
 209 <&| /page/info_section.mas, title=>"Trial barcode",  collapsible => 1, subtitle => '[<a id="generate_trial_barcode_link">Generate Barcode</a>]|[<a id="direct_phenotyping_link">Direct Phenotyping</a>]'&>
 210     <div class="well">
 211      <center><& /util/barcode.mas, identifier => "$identifier_prefix"."$trial_id", trial_id=> "$trial_id", trial_name=> "$trial_name", format=>"trial_qrcode"  &></center><br />
 212      </div>
 213      <& /breeders_toolbox/trial/generate_trial_barcode.mas, identifier => "$identifier_prefix"."$trial_id", trial_id=> "$trial_id", trial_name=> "$trial_name" &>
 214
 215 </&>
 216
 217 <& /breeders_toolbox/trial/edit_trial_details_dialog.mas, trial_name => $trial_name, breeding_program => $breeding_program_id, location => $location_id, year => $year, trial_type => $trial_type, trial_type_id => $trial_type_id, planting_date => $planting_date, harvest_date => $harvest_date, trial_description => $trial_description &>
 218
 219 % if ($hidap_enabled) {
 220
 221  <& /hidap/hidap_trial_link.mas, trial_id => $trial_id &>
 222
 223 % }
 224
 225 <& /breeders_toolbox/trial/edit_fieldMap.mas, trial_id => $trial_id, trial_name => $trial_name &>
 226 <&| /page/info_section.mas, id => "physical_layout", title=>"Physical Trial Layout", collapsible=>1, collapsed => 1, subtitle=>'[<a id="upload_trial_coords_link">Upload trial coordinates</a>] [<a id="edit_field_map_link">Edit Field Map</a>] [<button type="button" class="btn btn-link" data-toggle="modal" data-target="#fieldmap_usage_modal">Usage Help <span class="glyphicon glyphicon-question-sign"></span></button>]' &>
 227
 228   <& /breeders_toolbox/trial/trial_coords.mas, trial_id => $trial_id &>
 229
 230 </&>
 231
 232 <& /breeders_toolbox/trial/trial_coords_upload_dialogs.mas, trial_id => $trial_id, trial_name => $trial_name &>
 233
 234 <!--<style>
 235   div.left {
 236     float: left;
 237     clear: both;
 238   }
 239 .ui-autocomplete {
 240   max-height: 100px;
 241   overflow-y: auto;
 242   /* prevent horizontal scrollbar */
 243   overflow-x: hidden;
 244 }
 245
 246 </style> -->
 247
 248
 249
 250 <& /breeders_toolbox/trial/download_layout_dialog.mas, trial_id => $trial_id, trial_name => $trial_name, has_subplot_entries => $has_subplot_entries &>
 251
 252 <&| /page/info_section.mas, id => "trial_design_section", title=>"Design", collapsible=>1, collapsed=>0, subtitle=>"[<a id='trial_download_layout_button'>Download Layout</a>]"  &>
 253
 254 <div class="well well-sm">
 255
 256 <& /breeders_toolbox/trial/design.mas, trial_id => $trial_id &>
 257
 258 <&| /page/info_section.mas, id => "trial_accessions", title=>"Accessions", is_subsection => 1, collapsible=>1, collapsed=>1 &>
 259
 260 <& /breeders_toolbox/trial/trial_accessions.mas, trial_id => $trial_id &>
 261
 262 </&>
 263
 264 <& /breeders_toolbox/trial/add_trial_used_seedlots.mas, trial_id => $trial_id &>
 265 <&| /page/info_section.mas, id => "trial_seedlots", title=>"Seedlots", is_subsection => 1, collapsible=>1, collapsed=>1, subtitle=>"[<a id='trial_upload_seedlot_button' >Upload Seedlots Planted In Trial</a>]" &>
 266
 267 <& /breeders_toolbox/trial/trial_seedlots.mas, trial_id => $trial_id &>
 268
 269 </&>
 270
 271
 272 <&| /page/info_section.mas, id => "trial_controls", title=>"Controls",  is_subsection => 1, collapsible=>1, collapsed=>1 &>
 273
 274 <& /breeders_toolbox/trial/trial_controls.mas, trial_id => $trial_id &>
 275
 276 </&>
 277
 278 <& /breeders_toolbox/trial/upload_plot_gps_dialogs.mas, trial_id => $trial_id &>
 279 <&| /page/info_section.mas, id => "trial_plots", title=>"Plots",  is_subsection => 1, collapsible=>1, collapsed=>1, subtitle=>"[<a id='trial_upload_plot_gps_button' >Upload GPS Coordinates</a>]" &>
 280
 281 <& /breeders_toolbox/trial/trial_plots.mas, trial_id => $trial_id &>
 282
 283 </&>
 284
 285 % if ($has_subplot_entries) {
 286
 287 <&| /page/info_section.mas, id => "trial_subplots", title=>"Subplots",  is_subsection => 1, collapsible=>1, collapsed=>1 &>
 288
 289 <& /breeders_toolbox/trial/trial_subplots.mas, trial_id => $trial_id &>
 290
 291 </&>
 292
 293 % }
 294
 295 <&| /page/info_section.mas, id => "trial_plants", title=>"Plant Entries", is_subsection => 1, collapsible=> 1, collapsed=>1 &>
 296
 297 <div id="plant_entries_section">
 298
 299 % if (!$has_plant_entries) {
 300    <button class="btn btn-default" id="create_plant_entries_button">Add plant entries</button>
 301    <button class="btn btn-default" id="upload_plant_entries_button">Upload plant entries</button>
 302    <& /breeders_toolbox/trial/add_plants_per_plot.mas, trial_id => $trial_id, trial_name => $trial_name &>
 303
 304 % } else {
 305
 306 <& /breeders_toolbox/trial/trial_plants.mas, trial_id => $trial_id &>
 307
 308 % }
 309
 310 </div><!--closes plant_entries_section -->
 311
 312 </&>
 313
 314 <& /breeders_toolbox/trial/add_trial_treatment_dialogs.mas &>
 315 <&| /page/info_section.mas, id => "trial_treatments", title=>"Field Management Factors",  is_subsection => 1, collapsible=>1, collapsed=>1, subtitle=>"[<a id='trial_detail_page_add_treatment'>Add Management Factor</a>]" &>
 316
 317 <& /breeders_toolbox/trial/trial_treatments.mas, trial_id => $trial_id &>
 318
 319 </&>
 320
 321 </div><!-- closes well -->
 322
 323 </&>
 324
 325 <& /breeders_toolbox/trial/download_phenotypes_dialog.mas, trial_ids => $trial_id, dialog_name => $trial_name, dialog_type => 'Trial' &>
 326
 327 <&| /page/info_section.mas,
 328    title       => 'Weather at Trial Location',
 329    collapsible => 1,
 330 &>
 331
 332         <& /breeders_toolbox/trial/weather.mas, location => $location_name &>
 333
 334 </&>
 335
 336 % my $download_pheno_subtitle;
 337 % if (scalar(@$assayed_traits) > 0){
 338 %   $download_pheno_subtitle = "[<a id='trial_download_phenotypes_button'>Download Trial Data</a>]"
 339 % }
 340 % else {
 341 %   $download_pheno_subtitle = "Trial has no phenotype for download";
 342 % }
 343
 344 <&| /page/info_section.mas, id=> "trial_detail_traits_assayed", title => "Traits assayed", collapsible=>1, collapsed=>1, hide_if_empty=>1, subtitle=> $download_pheno_subtitle &>
 345
 346 % if ($has_expression_atlas) {
 347     <& /breeders_toolbox/trial/export_trial_to_expression_atlas.mas, trial_id => $trial_id, trial_name=>$trial_name, expression_atlas_url=>$expression_atlas_url, site_project_name=>$site_project_name, sgn_session_id=>$sgn_session_id, user_name=>$user_name, main_production_site_url=>$main_production_site_url &>
 348 % }
 349
 350 <& /breeders_toolbox/trial/phenotype_summary.mas, trial_id => $trial_id &>
 351
 352 </&>
 353
 354 <&| /page/info_section.mas, id => "pheno_heatmap", title=>"Phenotype Heatmap", collapsible=>1, collapsed => 1 &>
 355
 356     <& /breeders_toolbox/trial/phenotype_heatmap.mas, trial_id => $trial_id &>
 357
 358 </&>
 359
 360 <&| /page/info_section.mas, id=> "compute_derived_traits", title=>'Compute Trait Phenotypes', collapsible=>1, collapsed=>1, &>
 361
 362         <& /breeders_toolbox/trial/derived_trait.mas, trial_id => $trial_id &>
 363
 364 </&>
 365
 366
 367
 368 <&| /page/info_section.mas,
 369    title       => 'Trial JBrowse',
 370    collapsible => 1,
 371 &>
 372
 373         <& /breeders_toolbox/trial/jbrowse_instance.mas, trial_id => $trial_id &>
 374
 375 </&>
 376
 377 <&| /page/info_section.mas, title=>"Files", collapsible=>1, collapsed=>0 &>
 378
 379 <div class="well well-sm">
 380
 381     <div class="panel panel-default">
 382         <div class="panel-body">
 383             <&| /page/info_section.mas, title=>"Data Collection Files", is_subsection => 1, collapsible=>1, collapsed=>0, &>
 384                 <&| /page/info_section.mas, title=>"Phenotyping Spreadsheets", empty_message=>'', is_subsection => 1, collapsible=>0, collapsed=>0, subtitle=>'[<a name="create_spreadsheet_link">Create Spreadsheet</a>]' &>
 385                 </&>
 386                 <&| /page/info_section.mas, title=>"Android Field Book Layout", empty_message=>'', is_subsection => 1, collapsible=>0, collapsed=>0, subtitle=>'[<a name="create_fieldbook_link">Create Field Book</a>]' &>
 387                 </&>
 388                 <&| /page/info_section.mas, title=>"Data Collector Spreadsheet", empty_message=>'', is_subsection => 1, collapsible=>0, collapsed=>0, subtitle=> '[<a id="create_DataCollector_link">Create DataCollector Spreadsheet</a>]' &>
 389                 </&>
 390             </&><!-- closes create new phenotyping file section -->
 391         </div>
 392     </div>
 393     <div class="panel panel-default">
 394         <div class="panel-body">
 395             <&| /page/info_section.mas, title=>"Upload Phenotyping Files", is_subsection => 1, collapsible=>1, collapsed=>0, &>
 396                 <&| /page/info_section.mas, title=>"Phenotyping Spreadsheets", empty_message=>'', is_subsection => 1, collapsible=>0, collapsed=>0, subtitle=>'[<a id="upload_spreadsheet_phenotypes_link">Upload</a>]'&>
 397                 </&>
 398                 <&| /page/info_section.mas, title=>"Android Field Book Exported", empty_message=>'', is_subsection => 1, collapsible=>0, collapsed=>0, subtitle=>'[<a id="upload_fieldbook_phenotypes_link">Upload</a>]'&>
 399                 </&>
 400                 <&| /page/info_section.mas, title=>"Data Collector Spreadsheet", empty_message=>'', is_subsection => 1, collapsible=>0, collapsed=>0, subtitle=>'[<a id="upload_datacollector_phenotypes_link">Upload</a>]'&>
 401                 </&>
 402             </&><!-- closes upload new phenotype file section -->
 403         </div>
 404     </div>
 405     <div class="panel panel-default">
 406         <div class="panel-body">
 407             <&| /page/info_section.mas, title=>"Uploaded Phenotyping Files", is_subsection => 1, collapsible=>1, collapsed=>0, subtitle=>'[<a id="trial_set_phenotypes_fully_link">Phenotypes Fully Uploaded?</a>]' &>
 408
 409                 <table class="table table-bordered files_datatables" alt="">
 410                     <thead>
 411                         <tr><th>Filename</th><th>Date Uploaded</th><th>Uploaded By</th><th>File Type</th><th>Options</th></tr>
 412                     </thead>
 413                     <tbody>
 414 % foreach my $f (@$trial_phenotype_files) {
 415     <tr>
 416       <td><% $f->[4] %></td>
 417       <td><% $f->[1] %></td>
 418       <td><a href="/solpeople/profile/<% $f->[2] %>"><% $f->[3] %></a></td>
 419       <td><% $f->[6] %></td>
 420       <td><a href="/breeders/phenotyping/view/<% $f->[0] %>">View</a> | <a href="/breeders/phenotyping/download/<% $f->[0] %>">Download</a></td>
 421     </tr>
 422 % }
 423                     </tbody>
 424                 </table>
 425
 426             </&><!-- closes uploaded file section -->
 427         </div>
 428     </div>
 429     <div class="panel panel-default">
 430         <div class="panel-body">
 431             <&| /page/info_section.mas, title=>"Uploaded Additional Files", is_subsection => 1, collapsible=>1, collapsed=>0, subtitle=>'[<a id="trial_upload_additional_files_link">Upload Additional Files</a>]' &>
 432
 433             <& /breeders_toolbox/trial/upload_additional_file.mas, trial_id => $trial_id &>
 434
 435             </&><!-- closes uploaded additional file section -->
 436         </div>
 437     </div>
 438
 439 </div><!-- closes well -->
 440
 441 </&><!-- closes entire phenotyping file section -->
 442
 443 <& /breeders_toolbox/upload_phenotype_spreadsheet.mas &>
 444 <& /fieldbook/upload_phenotype_fieldbook.mas &>
 445 <& /breeders_toolbox/upload_phenotype_datacollector.mas &>
 446
 447 <& /breeders_toolbox/trial/create_datacollector_dialog.mas, trial_id => $trial_id, trial_name => $trial_name &>
 448 <& /fieldbook/create_fieldbook_dialog.mas, trial_id => $trial_id, trial_name => $trial_name &>
 449 <& /breeders_toolbox/trial/create_spreadsheet_dialog.mas, trial_id => $trial_id, trial_name => $trial_name &>
 450
 451 <& /breeders_toolbox/trial/set_phenotypes_fully_uploaded.mas, trial_id => $trial_id &>
 452
 453 % my $data_agreement_link = "Add/edit data agreement";
 454 % if ($user_can_modify) { $data_agreement_link = '[<a id="add_data_agreement">Add/edit data agreement</a>]'; }
 455 <&| /page/info_section.mas, title=>"Data Agreement", is_subsection => 0, collapsible=>1, collapsed=>0,  subtitle=> $data_agreement_link  &>
 456
 457 <& /breeders_toolbox/data_agreement.mas, trial_id => $trial_id &>
 458
 459 </&>
 460
 461 <&| /page/info_section.mas, title=>'Delete trial data', subtitle=>'<font color="red" role="">Deletion cannot be undone</font>', collapsed=>1, collapsible=>1 &>
 462   <& /breeders_toolbox/trial/trial_deletion.mas, trial_id => $trial_id  &>
 463
 464 </&>
 465
 466 % #print STDERR "Check 9 (mason) : ".(time() - $start_time)."\n";
 467
 468 <!-- Phenotypic correlation analysis -->
 469 <& /solgs/population/correlation.mas,
 470    trial_id => $trial_id
 471 &>
 472
 473   <!-- Population structure analysis -- PCA -->
 474 <& /solgs/model/pca.mas,
 475    trial_id => $trial_id
 476  &>
 477
 478 % #print STDERR "Check 10 (mason) : ".(time() - $start_time)."\n";
 479
 480 <div id="trialIDDiv" class="trialIDDivClass" style="display:none;">
 481 % print $trial_id;
 482 </div>
 483
 484 <div data-spy="affix" data-offset-top="0" style="max-height: 100%; overflow-y: auto;">
 485     <div class="panel panel-info">
 486         <div class="panel-heading">Completion</div>
 487         <div class="panel-body">
 488
 489 <&| /page/info_section.mas, title=>"Trial Info", collapsible=>1, collapsed=>0 &>
 490 %  if ($trial_name) {
 491             <p class="text-success" title="This trial has a name saved. You can view and edit this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Trial Name&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 492 %  } else {
 493             <p class="text-danger" title="This trial does not have a name. Please add this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Trial Name&nbsp;&nbsp;</small><span class="glyphicon glyphicon-remove-sign"></span></p>
 494 %  }
 495 %  if ($breeding_program_name) {
 496             <p class="text-success" title="This trial has a breeding program saved. You can view and edit this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Breeding Program&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 497 %  } else {
 498             <p class="text-danger" title="This trial does not have a breeding program. Please add this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Breeding Program&nbsp;&nbsp;</small><span class="glyphicon glyphicon-remove-sign"></span></p>
 499 %  }
 500 %  if ($location_name) {
 501             <p class="text-success" title="This trial has a location saved. You can view and edit this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Location&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 502 %  } else {
 503             <p class="text-danger" title="This trial does not have a location. Please add this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Location&nbsp;&nbsp;</small><span class="glyphicon glyphicon-remove-sign"></span></p>
 504 %  }
 505 %  if ($year) {
 506             <p class="text-success" title="This trial has a year saved. You can view and edit this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Year&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 507 %  } else {
 508             <p class="text-danger" title="This trial does not have a year. Please add this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Year&nbsp;&nbsp;</small><span class="glyphicon glyphicon-remove-sign"></span></p>
 509 %  }
 510 %  if ($trial_type) {
 511             <p class="text-success" title="This trial has a trial type saved. You can view and edit this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Trial Type&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 512 %  } else {
 513             <p class="text-danger" title="This trial does not have a trial type. Please add this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Trial Type&nbsp;&nbsp;</small><span class="glyphicon glyphicon-remove-sign"></span></p>
 514 %  }
 515 %  if ($planting_date) {
 516             <p class="text-success" title="This trial has a planting date saved. You can view and edit this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Planting Date&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 517 %  } else {
 518             <p class="text-danger" title="This trial does not have a planting date. Please add this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Planting Date&nbsp;&nbsp;</small><span class="glyphicon glyphicon-remove-sign"></span></p>
 519 %  }
 520 %  if ($harvest_date) {
 521             <p class="text-success" title="This trial has a harvest date saved. You can view and edit this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Harvest Date&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 522 %  } else {
 523             <p class="text-danger" title="This trial does not have a harvest date. Please add this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Harvest Date&nbsp;&nbsp;</small><span class="glyphicon glyphicon-remove-sign"></span></p>
 524 %  }
 525 %  if ($trial_description) {
 526             <p class="text-success" title="This trial has a description saved. You can view and edit this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Description&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 527 %  } else {
 528             <p class="text-danger" title="This trial does not have a description. Please add this information by clicking [Edit Trial Details] in the Trial Detail section on this page."><small>Description&nbsp;&nbsp;</small><span class="glyphicon glyphicon-remove-sign"></span></p>
 529 %  }
 530 %  if ($folder_id) {
 531             <p class="text-success" title="This trial is saved in a folder or breeding program. You can change this by clicking [Change] in the Folder section on this page."><small>In Folder&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 532 %  } else {
 533             <p class="text-info" title="This trial is not in a folder! If this happens please contact us because this should not happen. A trial should always be in a folder or breeding program."><small>Not In Folder&nbsp;&nbsp;</small><span class="glyphicon glyphicon-info-sign"></span></p>
 534 %  }
 535 </&>
 536
 537 <&| /page/info_section.mas, id=>"trial_completion_layout_section", title=>"Field Design", collapsible=>1, collapsed=>1 &>
 538 %  if ($design_name) {
 539             <p class="text-success" title="This trial has a design type saved. You can view and download this information in the Design section on this page."><small>Has Field Design&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 540 %  } else {
 541             <p class="text-danger" title="This trial does not have a design type saved! If this happens please contact us because this should not happen!"><small>No Field Design&nbsp;&nbsp;</small><span class="glyphicon glyphicon-remove-sign"></span></p>
 542 %  }
 543
 544             <div id="trial_completion_layout_section_div">
 545                 <div class="well well-sm">LOADING...</div>
 546             </div>
 547
 548 %  if ($has_plant_entries) {
 549             <p class="text-success" title="This trial has plot and plant entries saved. This means that phenotypes can be recorded on the plot and plant level."><small>Has Plots<br/>And Plants&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 550 %  } else {
 551             <p class="text-info" title="This trial has plot entries saved, but no plant entries. Plant entries are needed for plant level phenotyping. You can create plant entries in Design->Plant Entries section on this page."><small>Has Plots<br/>No Plants&nbsp;&nbsp;</small><span class="glyphicon glyphicon-info-sign"></span></p>
 552 %  }
 553 </&>
 554
 555 <&| /page/info_section.mas, id=>"trial_completion_phenotype_section", title=>"Phenotyping", collapsible=>1, collapsed=>1 &>
 556
 557             <div id="trial_completion_phenotype_section_div">
 558                 <div class="well well-sm">LOADING...</div>
 559             </div>
 560
 561 %  if ($phenotypes_fully_uploaded) {
 562             <p class="text-success" title="All recorded phenotypes for this trial are saved in the database. You can change this by clicking [Phenotypes Fully Uploaded?] in the Files section on this page."><small>Phenotyping<br/>Complete&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>
 563 %  } else {
 564             <p class="text-info" title="Once phenotypes are fully uploaded for a trial, you can click [Phenotypes Fully Uploaded?] in the Files section on this page."><small>Phenotyping<br/>Incomplete&nbsp;&nbsp;</small><span class="glyphicon glyphicon-info-sign"></span></p>
 565 %  }
 566 </&>
 567
 568         </div>
 569     </div>
 570 </div>
 571
 572 <script defer="defer">
 573
 574 jQuery(document).ready(function () {
 575
 576   trial_detail_page_setup_dialogs();
 577
 578   jQuery('#delete_breeding_program_trial_association_link').click(
 579      function() {
 580         var trial_id = get_trial_id();
 581
 582         var yes = confirm("Do you really want to remove this trial from the breeding program?");
 583         if (yes) {
 584             jQuery.ajax( {
 585                 url: '/breeders/program/remove/<% $breeding_program_id %>/'+trial_id,
 586                 data: { },
 587                 async: false,
 588                 success: function(response) {
 589                 }
 590             });
 591         }
 592     });
 593
 594     jQuery('#trial_completion_layout_section_onswitch').click( function() {
 595         jQuery.ajax ( {
 596             url : '/ajax/breeders/trial/'+ <% $trial_id %> + '/trial_completion_layout_section',
 597             success: function(response){
 598                 var html = '';
 599                 if (response.has_layout == 1){
 600                     html += '<p class="text-success" title="This trial has plots and their layout information saved in the database. All relationships between accessions, plots, seedlots, plants, and subplots are consistent. You can view and download this information in the Design section on this page."><small>Has Field Layout&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>';
 601                 } else {
 602                     html += '<p class="text-danger" title="There is something wrong with the layout! If this occurs please contact us because this should not occur! (click here for more info)"><span id="layout_error_button"><small>Bad Field Layout&nbsp;&nbsp;</small><span class="glyphicon glyphicon-remove-sign"></span></span></p>';
 603                 }
 604                 if (response.has_physical_map == 1){
 605                     html += '<p class="text-success" title="This trial has a physical map saved. You can view and edit the physical map in the Physical Trial Layout section on this page."><small>Has Physial Map&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>';
 606                 } else {
 607                     html += '<p class="text-info" title="This trial does not have physical map information. This means the map will not appear in the Physical Trial Layout section. You can add physical map info by clicking [Upload Trial Coordinates] in the Physical Trial Layout section on this page. (click here for more info)"><span id="physical_map_error_button"><small>No Physical Map&nbsp;&nbsp;</small><span class="glyphicon glyphicon-info-sign"></span></span></p>';
 608                 }
 609                 if (response.has_seedlots == 1){
 610                     html += '<p class="text-success" title="This trial has seedlots linked to plots (and the accessions are in sync). This allows us to track breeding material on the seedlots detail page. You can view this data and navigate to the seedlots on the Design section of this page."><small>Has Seedlots&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>';
 611                 } else {
 612                     html += '<p class="text-info" title="This trial does not have seedlots saved. This means we cannot track your breeding material using seedlots. You can upload this information by clicking [Upload Seedlots Planted in Trial] in the Design section on this page. (click here for more info)"><span id="seedlot_error_button"><small>No Seedlot Info&nbsp;&nbsp;</small><span class="glyphicon glyphicon-info-sign"></span></span></p>';
 613                 }
 614                 jQuery(document).on('click', 'span[id="layout_error_button"]', function(){
 615                     alert(response.layout_errors);
 616                 });
 617                 jQuery(document).on('click', 'span[id="physical_map_error_button"]', function(){
 618                     alert(response.physical_map_errors);
 619                 });
 620                 jQuery(document).on('click', 'span[id="seedlot_error_button"]', function(){
 621                     alert(response.seedlot_errors);
 622                 });
 623                 jQuery('#trial_completion_layout_section_div').html(html);
 624             },
 625             error: function(response){
 626                 alert('Error retrieving trial completion layout section');
 627             }
 628
 629         });
 630     });
 631
 632     jQuery('#trial_completion_phenotype_section_onswitch').click( function() {
 633         jQuery.ajax ( {
 634             url : '/ajax/breeders/trial/'+ <% $trial_id %> + '/trial_completion_phenotype_section',
 635             success: function(response){
 636                 var html = '';
 637                 if (response.has_phenotypes == 1){
 638                     html = '<p class="text-success" title="This trial has phenotypes saved. You can view and download this data in the Traits Assayed section on this page."><small>Has Phenotypes&nbsp;&nbsp;</small><span class="glyphicon glyphicon-ok-sign"></span></p>';
 639                 } else {
 640                     html = '<p class="text-info" title="This trial does not have any phenotypes stored. You can upload phenotypes in the Files section on this page."><small>No Phenotypes&nbsp;&nbsp;</small><span class="glyphicon glyphicon-info-sign"></span></p>';
 641                 }
 642                 jQuery('#trial_completion_phenotype_section_div').html(html);
 643             },
 644             error: function(response){
 645                 alert('Error retrieving trial completion phenotype section');
 646             }
 647
 648         });
 649     });
 650
 651     jQuery('#direct_phenotyping_link').click(function () {
 652         var  id = <% $trial_id %>;
 653         location.href = '/breeders/trial_phenotyping?trial_id=' + id + '';
 654     });
 655
 656 });
 657
 658 </script>