1 | <%-- $Id $ |
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2 | ------------------------------------------------------------------ |
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3 | Copyright (C) 2015 Nicklas Nordborg |
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4 | |
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5 | This file is part of BASE - BioArray Software Environment. |
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6 | Available at http://base.thep.lu.se/ |
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7 | |
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8 | BASE is free software; you can redistribute it and/or |
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9 | modify it under the terms of the GNU General Public License |
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10 | as published by the Free Software Foundation; either version 3 |
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11 | of the License, or (at your option) any later version. |
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12 | |
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13 | BASE is distributed in the hope that it will be useful, |
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14 | but WITHOUT ANY WARRANTY; without even the implied warranty of |
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15 | MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the |
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16 | GNU General Public License for more details. |
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17 | |
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18 | You should have received a copy of the GNU General Public License |
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19 | along with BASE. If not, see <http://www.gnu.org/licenses/>. |
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20 | ------------------------------------------------------------------ |
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21 | |
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22 | --%> |
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23 | <%@ page pageEncoding="UTF-8" session="false" contentType="application/json" |
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24 | import="net.sf.basedb.core.SessionControl" |
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25 | import="net.sf.basedb.core.DbControl" |
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26 | import="net.sf.basedb.core.AnnotationType" |
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27 | import="net.sf.basedb.core.Annotation" |
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28 | import="net.sf.basedb.core.Item" |
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29 | import="net.sf.basedb.core.Type" |
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30 | import="net.sf.basedb.core.ItemQuery" |
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31 | import="net.sf.basedb.core.ItemSubtype" |
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32 | import="net.sf.basedb.core.plugin.GuiContext" |
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33 | import="net.sf.basedb.util.Values" |
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34 | import="net.sf.basedb.util.error.ThrowableUtil" |
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35 | import="net.sf.basedb.util.extensions.ExtensionsInvoker" |
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36 | import="net.sf.basedb.core.query.Restrictions" |
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37 | import="net.sf.basedb.core.query.Expressions" |
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38 | import="net.sf.basedb.core.query.Hql" |
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39 | import="net.sf.basedb.clients.web.AnnotationUtil" |
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40 | import="net.sf.basedb.clients.web.Base" |
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41 | import="net.sf.basedb.clients.web.WebException" |
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42 | import="net.sf.basedb.clients.web.extensions.JspContext" |
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43 | import="net.sf.basedb.clients.web.extensions.ExtensionsControl" |
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44 | import="net.sf.basedb.clients.web.extensions.list.ListColumnAction" |
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45 | import="net.sf.basedb.clients.web.extensions.list.ListColumnUtil" |
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46 | import="org.json.simple.JSONObject" |
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47 | import="org.json.simple.JSONArray" |
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48 | import="java.util.Arrays" |
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49 | import="java.util.List" |
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50 | import="java.util.HashSet" |
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51 | %> |
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52 | <% |
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53 | response.setHeader("Cache-Control", "no-cache, max-age=0"); |
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54 | final SessionControl sc = Base.getExistingSessionControl(pageContext, true); |
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55 | final String ID = sc.getId(); |
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56 | final String cmd = request.getParameter("cmd"); |
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57 | final String root = request.getContextPath()+"/"; |
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58 | final Item itemType = Item.valueOf(request.getParameter("itemType")); |
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59 | DbControl dc = null; |
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60 | out.clear(); |
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61 | JSONObject json = new JSONObject(); |
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62 | json.put("status", "ok"); |
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63 | try |
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64 | { |
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65 | if ("GetSubtypesAndAnnotationTypes".equals(cmd)) |
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66 | { |
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67 | dc = sc.newDbControl(); |
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68 | |
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69 | ItemQuery<ItemSubtype> subtypeQuery = Base.getSubtypesQuery(itemType); |
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70 | JSONArray jsonSubtypes = new JSONArray(); |
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71 | for (ItemSubtype st : subtypeQuery.list(dc)) |
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72 | { |
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73 | JSONObject jsonSt = new JSONObject(); |
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74 | jsonSt.put("id", st.getId()); |
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75 | jsonSt.put("name", st.getName()); |
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76 | jsonSubtypes.add(jsonSt); |
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77 | } |
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78 | json.put("subtypes", jsonSubtypes); |
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79 | |
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80 | ItemQuery<AnnotationType> annotationTypeQuery = Base.getAnnotationTypesQuery(itemType); |
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81 | JSONArray jsonAnnotationTypes = new JSONArray(); |
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82 | for (AnnotationType at : annotationTypeQuery.list(dc)) |
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83 | { |
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84 | JSONObject jsonAt = new JSONObject(); |
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85 | jsonAt.put("id", at.getId()); |
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86 | jsonAt.put("name", at.getName()); |
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87 | jsonAnnotationTypes.add(jsonAt); |
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88 | } |
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89 | json.put("annotationTypes", jsonAnnotationTypes); |
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90 | |
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91 | } |
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92 | else if ("GetAnnotationTypesForCategory".equals(cmd)) |
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93 | { |
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94 | dc = sc.newDbControl(); |
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95 | String category = Values.getStringOrNull(request.getParameter("category")); |
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96 | JSONArray jsonAnnotationTypes = new JSONArray(); |
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97 | if (category != null) |
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98 | { |
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99 | ItemQuery<AnnotationType> annotationTypeQuery = Base.getAnnotationTypesQuery(itemType); |
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100 | annotationTypeQuery.join(Hql.innerJoin("categories", "c")); |
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101 | annotationTypeQuery.restrict(Restrictions.eq(Hql.property("c", "name"), Expressions.string(category))); |
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102 | for (AnnotationType at : annotationTypeQuery.list(dc)) |
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103 | { |
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104 | JSONObject jsonAt = new JSONObject(); |
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105 | jsonAt.put("id", at.getId()); |
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106 | jsonAt.put("name", at.getName()); |
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107 | jsonAnnotationTypes.add(jsonAt); |
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108 | } |
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109 | } |
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110 | json.put("annotationTypesCategory", jsonAnnotationTypes); |
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111 | } |
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112 | else if ("GetLazyParentColumns".equals(cmd)) |
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113 | { |
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114 | String subContext = Values.getStringOrNull(request.getParameter("subcontext")); |
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115 | GuiContext guiContext = GuiContext.list(itemType, subContext); |
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116 | Integer[] items = Values.getInt(request.getParameter("items").split(",")); |
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117 | dc = sc.newDbControl(); |
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118 | |
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119 | JspContext jspContext = ExtensionsControl.createContext(dc, pageContext, guiContext, null); |
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120 | jspContext.setAttribute("lazy-loading", false); |
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121 | ExtensionsInvoker<ListColumnAction<Object,?>> columnsInvoker = ListColumnUtil.useExtensions(jspContext); |
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122 | |
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123 | JSONArray jsonLazy = new JSONArray(); |
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124 | int index = 0; |
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125 | for (Integer id : items) |
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126 | { |
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127 | Object item = itemType.getById(dc, id); |
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128 | JSONObject jsonItem = new JSONObject(); |
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129 | JSONArray jsonCols = new JSONArray(); |
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130 | jsonItem.put("id", id); |
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131 | jsonItem.put("data", jsonCols); |
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132 | |
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133 | for (ListColumnAction col : columnsInvoker) |
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134 | { |
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135 | if (col.getId().startsWith("/")) |
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136 | { |
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137 | jsonCols.add(col.getFormatter().format(col.getValue(dc, item))); |
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138 | } |
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139 | } |
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140 | jsonLazy.add(jsonItem); |
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141 | } |
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142 | json.put("items", jsonLazy); |
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143 | } |
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144 | else |
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145 | { |
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146 | throw new WebException("popup", "Invalid command", "The command {1} is not recognised as a valid command.", cmd); |
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147 | } |
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148 | } |
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149 | catch (Throwable t) |
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150 | { |
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151 | t.printStackTrace(); |
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152 | json.clear(); |
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153 | json.put("status", "error"); |
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154 | json.put("message", t.getMessage()); |
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155 | json.put("stacktrace", ThrowableUtil.stackTraceToString(t)); |
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156 | } |
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157 | finally |
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158 | { |
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159 | json.writeJSONString(out); |
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160 | out.flush(); |
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161 | if (dc != null) dc.close(); |
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162 | } |
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163 | %> |
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