/templates/tool_form.mako
Mako | 317 lines | 290 code | 25 blank | 2 comment | 6 complexity | 5a67d99763052b94a541efa2a127431c MD5 | raw file
1<%inherit file="/base.mako"/> 2<%namespace file="/base_panels.mako" import="overlay" /> 3 4<%def name="stylesheets()"> 5 ${h.css( "autocomplete_tagging", "base", "panel_layout", "library" )} 6 <style type="text/css"> 7 html, body { 8 background-color: #fff; 9 } 10 </style> 11</%def> 12 13<%def name="javascripts()"> 14 ${h.js( "jquery", "galaxy.panels", "galaxy.base", "jquery.autocomplete", "jstorage" )} 15 <script type="text/javascript"> 16 $(function() { 17 $(window).bind("refresh_on_change", function() { 18 $(':file').each( function() { 19 var file = $(this); 20 var file_value = file.val(); 21 if (file_value) { 22 // disable file input, since we don't want to upload the file on refresh 23 var file_name = $(this).attr("name"); 24 file.attr( { name: 'replaced_file_input_' + file_name, disabled: true } ); 25 // create a new hidden field which stores the filename and has the original name of the file input 26 var new_file_input = $(document.createElement('input')); 27 new_file_input.attr( { "type": "hidden", "value": file_value, "name": file_name } ); 28 file.after(new_file_input); 29 } 30 }); 31 }); 32 33 // For drilldown parameters: add expand/collapse buttons and collapse initially-collapsed elements 34 $( 'li ul.toolParameterExpandableCollapsable' ).each( function() { 35 var el = $(this), 36 parent_li = el.parent('li'), 37 sub_ul = el.remove(); 38 39 parent_li.find( 'span' ).wrapInner( '<a/>' ).find( 'a' ).click( function() { 40 sub_ul.toggle(); 41 (this).html( sub_ul.is(":hidden") ? '[+]' : '[-]' ); 42 }); 43 parent_li.append( sub_ul ); 44 }); 45 46 $( 'ul ul.toolParameterExpandableCollapsable' ).each( function(i) { 47 var el = $(this); 48 if (el.attr("default_state") === "collapsed") { 49 el.hide(); 50 } 51 }); 52 53 function checkUncheckAll( name, check ) { 54 $("input[name='" + name + "'][type='checkbox']").attr('checked', !!check); 55 } 56 57 // Inserts the Select All / Unselect All buttons for checkboxes 58 $("div.checkUncheckAllPlaceholder").each( function() { 59 var check_name = $(this).attr("checkbox_name"); 60 select_link = $("<a class='action-button'></a>").text("Select All").click(function() { 61 checkUncheckAll(check_name, true); 62 }); 63 unselect_link = $("<a class='action-button'></a>").text("Unselect All").click(function() { 64 checkUncheckAll(check_name, false); 65 }); 66 $(this).append(select_link).append(" ").append(unselect_link); 67 }); 68 69 $(".add-librarydataset").live("click", function() { 70 var link = $(this); 71 $.ajax({ 72 url: "/tracks/list_libraries", 73 error: function(xhr, ajaxOptions, thrownError) { alert( "Grid failed" ); console.log(xhr, ajaxOptions, thrownError); }, 74 success: function(table_html) { 75 show_modal( 76 "Select Library Dataset", 77 table_html, { 78 "Cancel": function() { 79 hide_modal(); 80 }, 81 "Select": function() { 82 var names = []; 83 var ids = []; 84 counter = 1; 85 $('input[name=ldda_ids]:checked').each(function() { 86 var name = $.trim( $(this).siblings("label").text() ); 87 var id = $(this).val(); 88 names.push( counter + ". " + name ); 89 counter += 1; 90 ids.push(id); 91 }); 92 link.html( names.join("<br/>") ); 93 link.siblings("input[type=hidden]").val( ids.join("||") ); 94 hide_modal(); 95 } 96 } 97 ); 98 } 99 }); 100 }); 101 }); 102 103 %if not add_frame.debug: 104 if( window.name != "galaxy_main" ) { 105 location.replace( '${h.url_for( controller='root', action='index', tool_id=tool.id )}' ); 106 } 107 %endif 108 109 </script> 110 111</%def> 112 113<%def name="do_inputs( inputs, tool_state, errors, prefix, other_values=None )"> 114 <% 115 from galaxy.util.expressions import ExpressionContext 116 other_values = ExpressionContext( tool_state, other_values ) 117 %> 118 %for input_index, input in enumerate( inputs.itervalues() ): 119 %if not input.visible: 120 <% pass %> 121 %elif input.type == "repeat": 122 <div class="repeat-group"> 123 <div class="form-title-row"><strong>${input.title_plural}</strong></div> 124 <% repeat_state = tool_state[input.name] %> 125 %for i in range( len( repeat_state ) ): 126 <div class="repeat-group-item"> 127 <% 128 if input.name in errors: 129 rep_errors = errors[input.name][i] 130 else: 131 rep_errors = dict() 132 index = repeat_state[i]['__index__'] 133 %> 134 <div class="form-title-row"><strong>${input.title} ${i + 1}</strong></div> 135 ${do_inputs( input.inputs, repeat_state[i], rep_errors, prefix + input.name + "_" + str(index) + "|", other_values )} 136 <div class="form-row"><input type="submit" name="${prefix}${input.name}_${index}_remove" value="Remove ${input.title} ${i+1}"></div> 137 </div> 138 %if rep_errors.has_key( '__index__' ): 139 <div><img style="vertical-align: middle;" src="${h.url_for('/static/style/error_small.png')}"> <span style="vertical-align: middle;">${rep_errors['__index__']}</span></div> 140 %endif 141 %endfor 142 <div class="form-row"><input type="submit" name="${prefix}${input.name}_add" value="Add new ${input.title}"></div> 143 </div> 144 %elif input.type == "conditional": 145 <% 146 group_state = tool_state[input.name] 147 group_errors = errors.get( input.name, {} ) 148 current_case = group_state['__current_case__'] 149 group_prefix = prefix + input.name + "|" 150 %> 151 %if input.value_ref_in_group: 152 ${row_for_param( group_prefix, input.test_param, group_state, group_errors, other_values )} 153 %endif 154 ${do_inputs( input.cases[current_case].inputs, group_state, group_errors, group_prefix, other_values )} 155 %elif input.type == "upload_dataset": 156 %if input.get_datatype( trans, other_values ).composite_type is None: #have non-composite upload appear as before 157 <% 158 if input.name in errors: 159 rep_errors = errors[input.name][0] 160 else: 161 rep_errors = dict() 162 %> 163 ${do_inputs( input.inputs, tool_state[input.name][0], rep_errors, prefix + input.name + "_" + str( 0 ) + "|", other_values )} 164 %else: 165 <div class="repeat-group"> 166 <div class="form-title-row"><strong>${input.group_title( other_values )}</strong></div> 167 <% 168 repeat_state = tool_state[input.name] 169 %> 170 %for i in range( len( repeat_state ) ): 171 <div class="repeat-group-item"> 172 <% 173 if input.name in errors: 174 rep_errors = errors[input.name][i] 175 else: 176 rep_errors = dict() 177 index = repeat_state[i]['__index__'] 178 %> 179 <div class="form-title-row"><strong>File Contents for ${input.title_by_index( trans, i, other_values )}</strong></div> 180 ${do_inputs( input.inputs, repeat_state[i], rep_errors, prefix + input.name + "_" + str(index) + "|", other_values )} 181 ##<div class="form-row"><input type="submit" name="${prefix}${input.name}_${index}_remove" value="Remove ${input.title} ${i+1}"></div> 182 </div> 183 %endfor 184 ##<div class="form-row"><input type="submit" name="${prefix}${input.name}_add" value="Add new ${input.title}"></div> 185 </div> 186 %endif 187 %else: 188 ${row_for_param( prefix, input, tool_state, errors, other_values )} 189 %endif 190 %endfor 191</%def> 192 193<%def name="row_for_param( prefix, param, parent_state, parent_errors, other_values )"> 194 <% 195 if parent_errors.has_key( param.name ): 196 cls = "form-row form-row-error" 197 else: 198 cls = "form-row" 199 200 label = param.get_label() 201 202 field = param.get_html_field( trans, parent_state[ param.name ], other_values ) 203 field.refresh_on_change = param.refresh_on_change 204 205 # Field may contain characters submitted by user and these characters may be unicode; handle non-ascii characters gracefully. 206 field_html = field.get_html( prefix ) 207 if type( field_html ) is not unicode: 208 field_html = unicode( field_html, 'utf-8' ) 209 210 if param.type == "hidden": 211 return field_html 212 %> 213 <div class="${cls}"> 214 %if label: 215 <label for="${param.name}">${label}:</label> 216 %endif 217 <div class="form-row-input">${field_html}</div> 218 %if parent_errors.has_key( param.name ): 219 <div class="form-row-error-message"> 220 <div><img style="vertical-align: middle;" src="${h.url_for('/static/style/error_small.png')}"> <span style="vertical-align: middle;">${parent_errors[param.name]}</span></div> 221 </div> 222 %endif 223 224 %if param.help: 225 <div class="toolParamHelp" style="clear: both;"> 226 ${param.help} 227 </div> 228 %endif 229 230 <div style="clear: both;"></div> 231 232 </div> 233</%def> 234 235<% overlay(visible=False) %> 236 237%if add_frame.from_noframe: 238 <div class="warningmessage"> 239 <strong>Welcome to Galaxy</strong> 240 <hr/> 241 It appears that you found this tool from a link outside of Galaxy. 242 If you're not familiar with Galaxy, please consider visiting the 243 <a href="${h.url_for( controller='root' )}" target="_top">welcome page</a>. 244 To learn more about what Galaxy is and what it can do for you, please visit 245 the <a href="$add_frame.wiki_url" target="_top">Galaxy wiki</a>. 246 </div> 247 <br/> 248%endif 249 250<% 251 # Render an error message if a dynamically generated select list is missing a required 252 # index file or entry in the tool_data_table_conf.xml file. 253 message = "" 254 params_with_missing_data_table_entry = tool.params_with_missing_data_table_entry 255 params_with_missing_index_file = tool.params_with_missing_index_file 256 if params_with_missing_data_table_entry: 257 param = params_with_missing_data_table_entry[0] 258 message += "Data table named '%s' is required by tool but not configured. " % param.options.missing_tool_data_table_name 259 if tool.params_with_missing_index_file: 260 param = params_with_missing_index_file[0] 261 message += "Index file named '%s' is required by tool but not available. " % param.options.missing_index_file 262 263 # Handle calculating the redirect url for the special case where we have nginx proxy 264 # upload and need to do url_for on the redirect portion of the tool action. 265 try: 266 tool_url = h.url_for(tool.action) 267 except AttributeError: 268 assert len(tool.action) == 2 269 tool_url = tool.action[0] + h.url_for(tool.action[1]) 270%> 271%if message: 272 <div class="errormessage">${message}</div> 273 <br/> 274%endif 275<div class="toolForm" id="${tool.id}"> 276 %if tool.has_multiple_pages: 277 <div class="toolFormTitle">${tool.name} (step ${tool_state.page+1} of ${tool.npages})</div> 278 %else: 279 <div class="toolFormTitle">${tool.name} (version ${tool.version})</div> 280 %endif 281 <div class="toolFormBody"> 282 <form id="tool_form" name="tool_form" action="${tool_url}" enctype="${tool.enctype}" target="${tool.target}" method="${tool.method}"> 283 <input type="hidden" name="tool_id" value="${tool.id}"> 284 <input type="hidden" name="tool_state" value="${util.object_to_string( tool_state.encode( tool, app ) )}"> 285 %if tool.display_by_page[tool_state.page]: 286 ${trans.fill_template_string( tool.display_by_page[tool_state.page], context=tool.get_param_html_map( trans, tool_state.page, tool_state.inputs ) )} 287 <input type="submit" class="primary-button" name="runtool_btn" value="Execute"> 288 %else: 289 ${do_inputs( tool.inputs_by_page[ tool_state.page ], tool_state.inputs, errors, "" )} 290 <div class="form-row"> 291 %if tool_state.page == tool.last_page: 292 <input type="submit" class="primary-button" name="runtool_btn" value="Execute"> 293 %else: 294 <input type="submit" class="primary-button" name="runtool_btn" value="Next step"> 295 %endif 296 </div> 297 %endif 298 </form> 299 </div> 300</div> 301%if tool.help: 302 <div class="toolHelp"> 303 <div class="toolHelpBody"> 304 <% 305 if tool.has_multiple_pages: 306 tool_help = tool.help_by_page[tool_state.page] 307 else: 308 tool_help = tool.help 309 310 # Convert to unicode to display non-ascii characters. 311 if type( tool_help ) is not unicode: 312 tool_help = unicode( tool_help, 'utf-8') 313 %> 314 ${tool_help} 315 </div> 316 </div> 317%endif