/templates/library/common/browse_library.mako
Mako | 619 lines | 573 code | 38 blank | 8 comment | 18 complexity | f3190a0dfcac682441982f9af1b3e89f MD5 | raw file
1<%namespace file="/message.mako" import="render_msg" /> 2<%namespace file="/library/common/library_item_info.mako" import="render_library_item_info" /> 3<%namespace file="/library/common/common.mako" import="render_actions_on_multiple_items" /> 4<%namespace file="/library/common/common.mako" import="render_compression_types_help" /> 5<%namespace file="/library/common/common.mako" import="common_javascripts" /> 6 7<%! 8 def inherit(context): 9 if context.get('use_panels'): 10 return '/webapps/galaxy/base_panels.mako' 11 else: 12 return '/base.mako' 13%> 14<%inherit file="${inherit(context)}"/> 15 16<%def name="init()"> 17<% 18 self.has_left_panel=False 19 self.has_right_panel=False 20 self.message_box_visible=False 21 self.active_view="user" 22 self.overlay_visible=False 23 self.has_accessible_datasets = False 24%> 25</%def> 26 27## 28## Override methods from base.mako and base_panels.mako 29## 30<%def name="center_panel()"> 31 <div style="overflow: auto; height: 100%;"> 32 <div class="page-container" style="padding: 10px;"> 33 ${render_content()} 34 </div> 35 </div> 36</%def> 37 38## Render the grid's basic elements. Each of these elements can be subclassed. 39<%def name="body()"> 40 ${render_content()} 41</%def> 42 43<%def name="title()">Browse data library</%def> 44<%def name="stylesheets()"> 45 ${parent.stylesheets()} 46 ${h.css( "library" )} 47</%def> 48 49<%def name="javascripts()"> 50 ${parent.javascripts()} 51 ${h.js("jstorage")} 52 ${common_javascripts()} 53 ${self.grid_javascripts()} 54</%def> 55 56<%def name="grid_javascripts()"> 57 <script type="text/javascript"> 58 var init_libraries = function() { 59 var storage_id = "library-expand-state-${trans.security.encode_id(library.id)}"; 60 61 var restore_folder_state = function() { 62 var state = $.jStorage.get(storage_id); 63 if (state) { 64 for (var id in state) { 65 if (state[id] === true) { 66 var row = $("#" + id), 67 index = row.parent().children().index(row); 68 row.addClass("expanded").show(); 69 row.siblings().filter("tr[parent='" + index + "']").show(); 70 } 71 } 72 } 73 }; 74 75 var save_folder_state = function() { 76 var state = {}; 77 $("tr.folderRow").each( function() { 78 var folder = $(this); 79 state[folder.attr("id")] = folder.hasClass("expanded"); 80 }); 81 $.jStorage.set(storage_id, state); 82 }; 83 84 $("#library-grid").each(function() { 85 var child_of_parent_cache = {}; 86 // Recursively fill in children and descendents of each row 87 var process_row = function(q, parents) { 88 // Find my index 89 var parent = q.parent(), 90 this_level = child_of_parent_cache[parent] || (child_of_parent_cache[parent] = parent.children()); 91 92 var index = this_level.index(q); 93 // Find my immediate children 94 var children = $(par_child_dict[index]); 95 // Recursively handle them 96 var descendents = children; 97 children.each( function() { 98 child_descendents = process_row( $(this), parents.add(q) ); 99 descendents = descendents.add(child_descendents); 100 }); 101 // Set up expand / hide link 102 var expand_fn = function() { 103 if ( q.hasClass("expanded") ) { 104 descendents.hide(); 105 descendents.removeClass("expanded"); 106 q.removeClass("expanded"); 107 } else { 108 children.show(); 109 q.addClass("expanded"); 110 } 111 save_folder_state(); 112 }; 113 $("." + q.attr("id") + "-click").click(expand_fn); 114 // Check/uncheck boxes in subfolders. 115 q.children("td").children("input[type=checkbox]").click( function() { 116 if ( $(this).is(":checked") ) { 117 descendents.find("input[type=checkbox]").attr("checked", true); 118 } else { 119 descendents.find("input[type=checkbox]").attr("checked", false); 120 // If you uncheck a lower level checkbox, uncheck the boxes above it 121 // (since deselecting a child means the parent is not fully selected any more). 122 parents.children("td").children("input[type=checkbox]").attr("checked", false); 123 } 124 }); 125 // return descendents for use by parent 126 return descendents; 127 } 128 129 // Initialize dict[parent_id] = rows_which_have_that_parent_id_as_parent_attr 130 var par_child_dict = {}, 131 no_parent = []; 132 133 $(this).find("tbody tr").each( function() { 134 if ( $(this).attr("parent")) { 135 var parent = $(this).attr("parent"); 136 if (par_child_dict[parent] !== undefined) { 137 par_child_dict[parent].push(this); 138 } else { 139 par_child_dict[parent] = [this]; 140 } 141 } else { 142 no_parent.push(this); 143 } 144 }); 145 146 $(no_parent).each( function() { 147 descendents = process_row( $(this), $([]) ); 148 descendents.hide(); 149 }); 150 }); 151 152 restore_folder_state(); 153 }; 154 $(function() { 155 init_libraries(); 156 }); 157 158 // Looks for changes in dataset state using an async request. Keeps 159 // calling itself (via setTimeout) until all datasets are in a terminal 160 // state. 161 var updater = function ( tracked_datasets ) { 162 // Check if there are any items left to track 163 var empty = true; 164 for ( i in tracked_datasets ) { 165 empty = false; 166 break; 167 } 168 if ( ! empty ) { 169 setTimeout( function() { updater_callback( tracked_datasets ) }, 3000 ); 170 } 171 }; 172 var updater_callback = function ( tracked_datasets ) { 173 // Build request data 174 var ids = [] 175 var states = [] 176 $.each( tracked_datasets, function ( id, state ) { 177 ids.push( id ); 178 states.push( state ); 179 }); 180 // Make ajax call 181 $.ajax( { 182 type: "POST", 183 url: "${h.url_for( controller='library_common', action='library_item_updates' )}", 184 dataType: "json", 185 data: { ids: ids.join( "," ), states: states.join( "," ) }, 186 success : function ( data ) { 187 $.each( data, function( id, val ) { 188 // Replace HTML 189 var cell = $("#libraryItem-" + id).find("#libraryItemInfo"); 190 cell.html( val.html ); 191 // If new state was terminal, stop tracking 192 if (( val.state == "ok") || ( val.state == "error") || ( val.state == "empty") || ( val.state == "deleted" ) || ( val.state == "discarded" )) { 193 delete tracked_datasets[ parseInt(id) ]; 194 } else { 195 tracked_datasets[ parseInt(id) ] = val.state; 196 } 197 }); 198 updater( tracked_datasets ); 199 }, 200 error: function() { 201 // Just retry, like the old method, should try to be smarter 202 updater( tracked_datasets ); 203 } 204 }); 205 }; 206 </script> 207</%def> 208 209<%def name="render_dataset( cntrller, ldda, library_dataset, selected, library, folder, pad, parent, row_counter, tracked_datasets, show_deleted=False, simple=False )"> 210 <% 211 ## The received ldda must always be a LibraryDatasetDatasetAssociation object. The object id passed to methods 212 ## from the drop down menu should be the ldda id to prevent id collision ( which could happen when displaying 213 ## children, which are always lddas ). We also need to make sure we're displaying the latest version of this 214 ## library_dataset, so we display the attributes from the ldda. 215 216 from galaxy.web.controllers.library_common import branch_deleted 217 218 is_admin = trans.user_is_admin() and cntrller == 'library_admin' 219 220 if ldda.user: 221 uploaded_by = ldda.user.email 222 else: 223 uploaded_by = 'anonymous' 224 if ldda == library_dataset.library_dataset_dataset_association: 225 current_version = True 226 if is_admin: 227 can_modify = can_manage = True 228 elif cntrller in [ 'library', 'requests' ]: 229 can_modify = trans.app.security_agent.can_modify_library_item( current_user_roles, library_dataset ) 230 can_manage = trans.app.security_agent.can_manage_library_item( current_user_roles, library_dataset ) 231 else: 232 can_modify = can_manage = False 233 else: 234 current_version = False 235 if current_version and ldda.state not in ( 'ok', 'error', 'empty', 'deleted', 'discarded' ): 236 tracked_datasets[ldda.id] = ldda.state 237 info_association, inherited = ldda.get_info_association( restrict=True ) 238 form_type = trans.model.FormDefinition.types.LIBRARY_INFO_TEMPLATE 239 %> 240 %if current_version and ( not ldda.library_dataset.deleted or show_deleted ): 241 <tr class="datasetRow" 242 %if parent is not None: 243 parent="${parent}" 244 %endif 245 id="libraryItem-${ldda.id}"> 246 <td style="padding-left: ${pad+20}px;"> 247 <input style="float: left;" type="checkbox" name="ldda_ids" id="${trans.security.encode_id( ldda.id )}" value="${trans.security.encode_id( ldda.id )}" 248 %if selected: 249 checked="checked" 250 %endif 251 /> 252 %if simple: 253 <label for="${trans.security.encode_id( ldda.id )}">${ldda.name}</label> 254 %else: 255 <div style="float: left; margin-left: 1px;" class="menubutton split popup" id="dataset-${ldda.id}-popup"> 256 <a class="view-info" href="${h.url_for( controller='library_common', action='ldda_info', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), id=trans.security.encode_id( ldda.id ), use_panels=use_panels, show_deleted=show_deleted )}"> 257 %if ldda.library_dataset.deleted: 258 <div class="libraryItem-error">${ldda.name}</div> 259 %else: 260 ${ldda.name} 261 %endif 262 </a> 263 </div> 264 %if not library.deleted: 265 <div popupmenu="dataset-${ldda.id}-popup"> 266 %if not branch_deleted( folder ) and not ldda.library_dataset.deleted and can_modify: 267 <a class="action-button" href="${h.url_for( controller='library_common', action='ldda_edit_info', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), id=trans.security.encode_id( ldda.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit information</a> 268 <a class="action-button" href="${h.url_for( controller='library_common', action='move_library_item', cntrller=cntrller, item_type='ldda', item_id=trans.security.encode_id( ldda.id ), source_library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Move this dataset</a> 269 %else: 270 <a class="action-button" href="${h.url_for( controller='library_common', action='ldda_info', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), id=trans.security.encode_id( ldda.id ), use_panels=use_panels, show_deleted=show_deleted )}">View information</a> 271 %endif 272 %if not branch_deleted( folder ) and not ldda.library_dataset.deleted and can_modify and not info_association: 273 <a class="action-button" href="${h.url_for( controller='library_common', action='add_template', cntrller=cntrller, item_type='ldda', form_type=form_type, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), ldda_id=trans.security.encode_id( ldda.id ), use_panels=use_panels, show_deleted=show_deleted )}">Use template</a> 274 %endif 275 %if not branch_deleted( folder ) and not ldda.library_dataset.deleted and can_modify and info_association: 276 <a class="action-button" href="${h.url_for( controller='library_common', action='edit_template', cntrller=cntrller, item_type='ldda', form_type=form_type, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), ldda_id=trans.security.encode_id( ldda.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit template</a> 277 <a class="action-button" href="${h.url_for( controller='library_common', action='delete_template', cntrller=cntrller, item_type='ldda', form_type=form_type, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), ldda_id=trans.security.encode_id( ldda.id ), use_panels=use_panels, show_deleted=show_deleted )}">Unuse template</a> 278 %endif 279 %if not branch_deleted( folder ) and not ldda.library_dataset.deleted and can_manage: 280 %if not trans.app.security_agent.dataset_is_public( ldda.dataset ): 281 <a class="action-button" href="${h.url_for( controller='library_common', action='make_library_item_public', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_type='ldda', id=trans.security.encode_id( ldda.dataset.id ), use_panels=use_panels, show_deleted=show_deleted )}">Make public</a> 282 %endif 283 <a class="action-button" href="${h.url_for( controller='library_common', action='ldda_permissions', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), id=trans.security.encode_id( ldda.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit permissions</a> 284 %endif 285 %if not branch_deleted( folder ) and not ldda.library_dataset.deleted and can_modify: 286 <a class="action-button" href="${h.url_for( controller='library_common', action='upload_library_dataset', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), replace_id=trans.security.encode_id( library_dataset.id ), show_deleted=show_deleted )}">Upload a new version of this dataset</a> 287 %endif 288 %if not branch_deleted( folder ) and not ldda.library_dataset.deleted and ldda.has_data: 289 <a class="action-button" href="${h.url_for( controller='library_common', action='import_datasets_to_histories', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), ldda_ids=trans.security.encode_id( ldda.id ), use_panels=use_panels, show_deleted=show_deleted )}">Import this dataset into selected histories</a> 290 <a class="action-button" href="${h.url_for( controller='library_common', action='download_dataset_from_folder', cntrller=cntrller, id=trans.security.encode_id( ldda.id ), library_id=trans.security.encode_id( library.id ), use_panels=use_panels )}">Download this dataset</a> 291 %endif 292 %if can_modify: 293 %if not library.deleted and not branch_deleted( folder ) and not ldda.library_dataset.deleted: 294 <a class="action-button" confirm="Click OK to delete dataset '${ldda.name}'." href="${h.url_for( controller='library_common', action='delete_library_item', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_id=trans.security.encode_id( library_dataset.id ), item_type='library_dataset', show_deleted=show_deleted )}">Delete this dataset</a> 295 %elif not library.deleted and not branch_deleted( folder ) and not ldda.library_dataset.purged and ldda.library_dataset.deleted: 296 <a class="action-button" href="${h.url_for( controller='library_common', action='undelete_library_item', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_id=trans.security.encode_id( library_dataset.id ), item_type='library_dataset', show_deleted=show_deleted )}">Undelete this dataset</a> 297 %endif 298 %endif 299 </div> 300 %endif 301 %endif 302 </td> 303 % if not simple: 304 <td id="libraryItemInfo">${render_library_item_info( ldda )}</td> 305 <td>${uploaded_by}</td> 306 % endif 307 <td>${ldda.create_time.strftime( "%Y-%m-%d" )}</td> 308 <td>${ldda.get_size( nice_size=True )}</td> 309 </tr> 310 <% 311 my_row = row_counter.count 312 row_counter.increment() 313 %> 314 %endif 315</%def> 316 317<%def name="render_folder( cntrller, folder, folder_pad, created_ldda_ids, library, hidden_folder_ids, tracked_datasets, show_deleted=False, parent=None, row_counter=None, root_folder=False, simple=False )"> 318 <% 319 from galaxy.web.controllers.library_common import active_folders, active_folders_and_library_datasets, activatable_folders_and_library_datasets, branch_deleted 320 321 is_admin = trans.user_is_admin() and cntrller == 'library_admin' 322 has_accessible_library_datasets = trans.app.security_agent.has_accessible_library_datasets( trans, folder, trans.user, current_user_roles, search_downward=False ) 323 324 if root_folder: 325 pad = folder_pad 326 expander = h.url_for("/static/images/silk/resultset_bottom.png") 327 folder_img = h.url_for("/static/images/silk/folder_page.png") 328 else: 329 pad = folder_pad + 20 330 expander = h.url_for("/static/images/silk/resultset_next.png") 331 folder_img = h.url_for("/static/images/silk/folder.png") 332 if created_ldda_ids: 333 created_ldda_ids = util.listify( created_ldda_ids ) 334 if str( folder.id ) in hidden_folder_ids: 335 return "" 336 my_row = None 337 if is_admin: 338 can_add = can_modify = can_manage = True 339 elif cntrller in [ 'library' ]: 340 can_access, folder_ids = trans.app.security_agent.check_folder_contents( trans.user, current_user_roles, folder ) 341 if not can_access: 342 can_show, folder_ids = \ 343 trans.app.security_agent.show_library_item( trans.user, 344 current_user_roles, 345 folder, 346 [ trans.app.security_agent.permitted_actions.LIBRARY_ADD, 347 trans.app.security_agent.permitted_actions.LIBRARY_MODIFY, 348 trans.app.security_agent.permitted_actions.LIBRARY_MANAGE ] ) 349 if not can_show: 350 return "" 351 can_add = trans.app.security_agent.can_add_library_item( current_user_roles, folder ) 352 can_modify = trans.app.security_agent.can_modify_library_item( current_user_roles, folder ) 353 can_manage = trans.app.security_agent.can_manage_library_item( current_user_roles, folder ) 354 else: 355 can_add = can_modify = can_manage = False 356 357 form_type = trans.model.FormDefinition.types.LIBRARY_INFO_TEMPLATE 358 info_association, inherited = folder.get_info_association( restrict=True ) 359 %> 360 %if not root_folder and ( not folder.deleted or show_deleted ): 361 <% encoded_id = trans.security.encode_id( folder.id ) %> 362 <tr id="folder-${encoded_id}" class="folderRow libraryOrFolderRow" 363 %if parent is not None: 364 parent="${parent}" 365 style="display: none;" 366 %endif 367 > 368 <td style="padding-left: ${folder_pad}px;"> 369 <input type="checkbox" class="folderCheckbox"/> 370 <span class="expandLink folder-${encoded_id}-click"> 371 <div style="float: left; margin-left: 2px;" class="menubutton split popup" id="folder_img-${folder.id}-popup"> 372 <a class="folder-${encoded_id}-click" href="javascript:void(0);"> 373 <span class="rowIcon"></span> 374 %if folder.deleted: 375 <div class="libraryItem-error">${folder.name}</div> 376 %else: 377 ${folder.name} 378 %endif 379 </a> 380 </div> 381 </span> 382 %if not library.deleted: 383 <div popupmenu="folder_img-${folder.id}-popup"> 384 %if not branch_deleted( folder ) and can_add: 385 <a class="action-button" href="${h.url_for( controller='library_common', action='upload_library_dataset', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), use_panels=use_panels, show_deleted=show_deleted )}">Add datasets</a> 386 <a class="action-button" href="${h.url_for( controller='library_common', action='create_folder', cntrller=cntrller, parent_id=trans.security.encode_id( folder.id ), library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Add sub-folder</a> 387 %endif 388 %if not branch_deleted( folder ): 389 %if has_accessible_library_datasets: 390 <a class="action-button" href="${h.url_for( controller='library_common', action='import_datasets_to_histories', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), use_panels=use_panels, show_deleted=show_deleted )}">Select datasets for import into selected histories</a> 391 %endif 392 %if can_modify: 393 <a class="action-button" href="${h.url_for( controller='library_common', action='folder_info', cntrller=cntrller, id=trans.security.encode_id( folder.id ), library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit information</a> 394 <a class="action-button" href="${h.url_for( controller='library_common', action='move_library_item', cntrller=cntrller, item_type='folder', item_id=trans.security.encode_id( folder.id ), source_library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Move this folder</a> 395 %else: 396 <a class="action-button" class="view-info" href="${h.url_for( controller='library_common', action='folder_info', cntrller=cntrller, id=trans.security.encode_id( folder.id ), library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">View information</a> 397 %endif 398 %endif 399 %if not branch_deleted( folder ) and can_modify and not info_association: 400 <a class="action-button" href="${h.url_for( controller='library_common', action='add_template', cntrller=cntrller, item_type='folder', form_type=form_type, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), use_panels=use_panels, show_deleted=show_deleted )}">Use template</a> 401 %endif 402 %if not branch_deleted( folder ) and can_modify and info_association: 403 <a class="action-button" href="${h.url_for( controller='library_common', action='edit_template', cntrller=cntrller, item_type='folder', form_type=form_type, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit template</a> 404 <a class="action-button" href="${h.url_for( controller='library_common', action='delete_template', cntrller=cntrller, item_type='folder', form_type=form_type, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( folder.id ), use_panels=use_panels, show_deleted=show_deleted )}">Unuse template</a> 405 %endif 406 %if not branch_deleted( folder ) and can_manage: 407 %if not trans.app.security_agent.folder_is_public( folder ): 408 <a class="action-button" href="${h.url_for( controller='library_common', action='make_library_item_public', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_type='folder', id=trans.security.encode_id( folder.id ), use_panels=use_panels, show_deleted=show_deleted )}">Make public</a> 409 %endif 410 <a class="action-button" href="${h.url_for( controller='library_common', action='folder_permissions', cntrller=cntrller, id=trans.security.encode_id( folder.id ), library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit permissions</a> 411 %endif 412 %if can_modify: 413 %if not library.deleted and not folder.deleted: 414 <a class="action-button" confirm="Click OK to delete the folder '${folder.name}.'" href="${h.url_for( controller='library_common', action='delete_library_item', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_id=trans.security.encode_id( folder.id ), item_type='folder', show_deleted=show_deleted )}">Delete this folder</a> 415 %elif not library.deleted and folder.deleted and not folder.purged: 416 <a class="action-button" href="${h.url_for( controller='library_common', action='undelete_library_item', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_id=trans.security.encode_id( folder.id ), item_type='folder', show_deleted=show_deleted )}">Undelete this folder</a> 417 %endif 418 %endif 419 </div> 420 %endif 421 <td> 422 %if folder.description: 423 ${folder.description} 424 %endif 425 <td colspan="3"></td> 426 </tr> 427 <% 428 my_row = row_counter.count 429 row_counter.increment() 430 %> 431 %endif 432 <% 433 if show_deleted: 434 sub_folders, library_datasets = activatable_folders_and_library_datasets( trans, folder ) 435 else: 436 sub_folders, library_datasets = active_folders_and_library_datasets( trans, folder ) 437 %> 438 %if is_admin: 439 %for sub_folder in sub_folders: 440 ${render_folder( cntrller, sub_folder, pad, created_ldda_ids, library, [], tracked_datasets, show_deleted=show_deleted, parent=my_row, row_counter=row_counter, root_folder=False )} 441 %endfor 442 %for library_dataset in library_datasets: 443 <% 444 ldda = library_dataset.library_dataset_dataset_association 445 if ldda: 446 # There should always be an ldda, but some users running their own instances have reported that 447 # some of their LibraryDatasets have no associated lddas 448 selected = created_ldda_ids and str( ldda.id ) in created_ldda_ids 449 %> 450 %if ldda: 451 ${render_dataset( cntrller, ldda, library_dataset, selected, library, folder, pad, my_row, row_counter, tracked_datasets, show_deleted=show_deleted )} 452 %endif 453 %endfor 454 %else: 455 %for sub_folder in sub_folders: 456 ${render_folder( cntrller, sub_folder, pad, created_ldda_ids, library, hidden_folder_ids, tracked_datasets, show_deleted=show_deleted, parent=my_row, row_counter=row_counter, root_folder=False, simple=simple )} 457 %endfor 458 %for library_dataset in library_datasets: 459 <% 460 ldda = library_dataset.library_dataset_dataset_association 461 if ldda: 462 # There should always be an ldda, but some users running their own instances have reported that 463 # some of their LibraryDatasets have no associated lddas 464 can_access = trans.app.security_agent.can_access_dataset( current_user_roles, ldda.dataset ) 465 selected = created_ldda_ids and str( ldda.id ) in created_ldda_ids 466 else: 467 can_access = False 468 %> 469 %if can_access: 470 ${render_dataset( cntrller, ldda, library_dataset, selected, library, folder, pad, my_row, row_counter, tracked_datasets, show_deleted=show_deleted, simple=simple )} 471 %endif 472 %endfor 473 %endif 474</%def> 475 476<%def name="render_content(simple=False)"> 477 <% 478 from galaxy import util 479 from galaxy.web.controllers.library_common import branch_deleted 480 from time import strftime 481 482 is_admin = trans.user_is_admin() and cntrller == 'library_admin' 483 484 if is_admin: 485 can_add = can_modify = can_manage = True 486 elif cntrller in [ 'library', 'requests' ]: 487 can_add = trans.app.security_agent.can_add_library_item( current_user_roles, library ) 488 can_modify = trans.app.security_agent.can_modify_library_item( current_user_roles, library ) 489 can_manage = trans.app.security_agent.can_manage_library_item( current_user_roles, library ) 490 else: 491 can_add = can_modify = can_manage = False 492 493 info_association, inherited = library.get_info_association() 494 form_type = trans.model.FormDefinition.types.LIBRARY_INFO_TEMPLATE 495 496 self.has_accessible_datasets = trans.app.security_agent.has_accessible_library_datasets( trans, library.root_folder, trans.user, current_user_roles ) 497 root_folder_has_accessible_library_datasets = trans.app.security_agent.has_accessible_library_datasets( trans, library.root_folder, trans.user, current_user_roles, search_downward=False ) 498 has_accessible_folders = is_admin or trans.app.security_agent.has_accessible_folders( trans, library.root_folder, trans.user, current_user_roles ) 499 500 tracked_datasets = {} 501 502 class RowCounter( object ): 503 def __init__( self ): 504 self.count = 0 505 def increment( self ): 506 self.count += 1 507 def __str__( self ): 508 return str( self.count ) 509 %> 510 511 <h2>Data Library “${library.name}”</h2> 512 513 <ul class="manage-table-actions"> 514 %if not library.deleted and ( is_admin or can_add ): 515 <li><a class="action-button" href="${h.url_for( controller='library_common', action='upload_library_dataset', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( library.root_folder.id ), use_panels=use_panels, show_deleted=show_deleted )}">Add datasets</a></li> 516 <li><a class="action-button" href="${h.url_for( controller='library_common', action='create_folder', cntrller=cntrller, parent_id=trans.security.encode_id( library.root_folder.id ), library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Add folder</a></li> 517 %endif 518 %if ( ( not library.deleted ) and ( can_modify or can_manage ) ) or ( can_modify and not library.purged ) or ( library.purged ): 519 <li><a class="action-button" id="library-${library.id}-popup" class="menubutton">Library Actions</a></li> 520 <div popupmenu="library-${library.id}-popup"> 521 %if not library.deleted: 522 %if can_modify: 523 <a class="action-button" href="${h.url_for( controller='library_common', action='library_info', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit information</a> 524 <a class="action-button" confirm="Click OK to delete the library named '${library.name}'." href="${h.url_for( controller='library_common', action='delete_library_item', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_id=trans.security.encode_id( library.id ), item_type='library' )}">Delete this data library</a> 525 %if show_deleted: 526 <a class="action-button" href="${h.url_for( controller='library_common', action='browse_library', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=False )}">Hide deleted items</a> 527 %else: 528 <a class="action-button" href="${h.url_for( controller='library_common', action='browse_library', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=True )}">Show deleted items</a> 529 %endif 530 %endif 531 %if can_modify and not library.info_association: 532 <a class="action-button" href="${h.url_for( controller='library_common', action='add_template', cntrller=cntrller, item_type='library', form_type=form_type, library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Use template</a> 533 %endif 534 %if can_modify and info_association: 535 <a class="action-button" href="${h.url_for( controller='library_common', action='edit_template', cntrller=cntrller, item_type='library', form_type=form_type, library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit template</a> 536 <a class="action-button" href="${h.url_for( controller='library_common', action='delete_template', cntrller=cntrller, item_type='library', form_type=form_type, library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Unuse template</a> 537 %endif 538 %if can_manage: 539 %if not trans.app.security_agent.library_is_public( library, contents=True ): 540 <a class="action-button" href="${h.url_for( controller='library_common', action='make_library_item_public', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_type='library', id=trans.security.encode_id( library.id ), contents=True, use_panels=use_panels, show_deleted=show_deleted )}">Make public</a> 541 %endif 542 <a class="action-button" href="${h.url_for( controller='library_common', action='library_permissions', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit permissions</a> 543 %endif 544 %if root_folder_has_accessible_library_datasets: 545 <a class="action-button" href="${h.url_for( controller='library_common', action='import_datasets_to_histories', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( library.root_folder.id ), use_panels=use_panels, show_deleted=show_deleted )}">Select datasets for import into selected histories</a> 546 %endif 547 %elif can_modify and not library.purged: 548 <a class="action-button" href="${h.url_for( controller='library_common', action='undelete_library_item', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_id=trans.security.encode_id( library.id ), item_type='library', use_panels=use_panels )}">Undelete this data library</a> 549 %elif library.purged: 550 <a class="action-button" href="${h.url_for( controller='library_common', action='browse_library', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">This data library has been purged</a> 551 %endif 552 </div> 553 %endif 554 </ul> 555 556 %if message: 557 ${render_msg( message, status )} 558 %endif 559 560 %if library.synopsis not in [ '', 'None', None ]: 561 <div class="libraryItemBody"> 562 ${library.synopsis} 563 </div> 564 %endif 565 566 %if self.has_accessible_datasets: 567 <form name="act_on_multiple_datasets" action="${h.url_for( controller='library_common', action='act_on_multiple_datasets', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}" onSubmit="javascript:return checkForm();" method="post"> 568 %endif 569 %if has_accessible_folders: 570 <table cellspacing="0" cellpadding="0" border="0" width="100%" class="grid" id="library-grid"> 571 <thead> 572 <tr class="libraryTitle"> 573 <th> 574 %if self.has_accessible_datasets: 575 <input type="checkbox" id="checkAll" name=select_all_datasets_checkbox value="true" onclick='checkAllFields(1);'/><input type="hidden" name=select_all_datasets_checkbox value="true"/> 576 %endif 577 Name 578 </th> 579 % if not simple: 580 <th>Message</th> 581 <th>Uploaded By</th> 582 % endif 583 <th>Date</th> 584 <th>File Size</th> 585 </tr> 586 </thead> 587 <% row_counter = RowCounter() %> 588 %if cntrller in [ 'library', 'requests' ]: 589 ${self.render_folder( 'library', library.root_folder, 0, created_ldda_ids, library, hidden_folder_ids, tracked_datasets, show_deleted=show_deleted, parent=None, row_counter=row_counter, root_folder=True, simple=simple )} 590 %if not library.deleted and self.has_accessible_datasets and not simple: 591 ${render_actions_on_multiple_items()} 592 %endif 593 %elif ( trans.user_is_admin() and cntrller in [ 'library_admin', 'requests_admin' ] ): 594 ${self.render_folder( 'library_admin', library.root_folder, 0, created_ldda_ids, library, [], tracked_datasets, show_deleted=show_deleted, parent=None, row_counter=row_counter, root_folder=True )} 595 %if not library.deleted and not show_deleted and self.has_accessible_datasets: 596 ${render_actions_on_multiple_items()} 597 %endif 598 %endif 599 </table> 600 %endif 601 %if self.has_accessible_datasets: 602 </form> 603 %endif 604 605 %if tracked_datasets: 606 <script type="text/javascript"> 607 // Updater 608 updater({${ ",".join( [ '"%s" : "%s"' % ( k, v ) for k, v in tracked_datasets.iteritems() ] ) }}); 609 </script> 610 <!-- running: do not change this comment, used by TwillTestCase.library_wait --> 611 %endif 612 613 %if self.has_accessible_datasets and not simple: 614 ${render_compression_types_help( comptypes )} 615 %endif 616 %if not has_accessible_folders: 617 The data library '${library.name}' does not contain any datasets that you can access. 618 %endif 619</%def>