1 | package dbnp.rest |
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2 | |
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3 | import java.util.Map; |
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4 | import java.util.HashMap; |
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5 | import grails.converters.JSON |
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6 | import org.codehaus.groovy.grails.web.json.* |
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7 | import dbnp.studycapturing.TemplateFieldListItem |
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8 | import dbnp.studycapturing.Template |
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9 | import dbnp.data.CleanDataLayer |
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10 | |
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11 | |
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12 | |
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13 | |
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14 | /** CCMCommunicationManager |
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15 | * |
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16 | * This class implements a REST client to fetch data from the Clinical Chemistry Module (CCM). |
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17 | * The communicatino manager provides methods for accessing each resources. |
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18 | * Every REST resource corresponds to exactly one method in this class that makes |
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19 | * the communication with the resource available. |
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20 | * |
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21 | * For instance, the getSearchable() method calls the getMeasurements resource of the CCM |
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22 | * by passing arguments to it and returning the result of the calling that resource. |
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23 | */ |
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24 | |
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25 | |
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26 | class CCMCommunicationManager implements CleanDataLayer { |
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27 | |
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28 | |
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29 | /** ServerULR contains a string that represents the URL of the |
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30 | * rest resources that this communication manager connects to. |
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31 | */ |
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32 | def static ServerURL = "http://nbx5.nugo.org:8182/ClinicalChemistry/rest"; |
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33 | //def static ServerURL = "http://localhost:8080/gscf/rest"; |
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34 | |
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35 | |
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36 | /* Methods implemented for CleanDataLayer */ |
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37 | |
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38 | |
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39 | /** |
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40 | * Get the names of all quantitative features that are available for a certain assay |
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41 | * @param assayID the module internal ID for the assay |
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42 | * @return |
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43 | */ |
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44 | public String[] getFeaturesQuantitative(long assayID) { |
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45 | return new String [20]; |
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46 | } |
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47 | |
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48 | |
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49 | |
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50 | /** |
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51 | * Get the data for a quantitative feature for a certain assay for a certain set of samples |
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52 | * @param feature |
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53 | * @param assayID |
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54 | * @param sampleIDs |
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55 | * @return Map |
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56 | */ |
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57 | public Map getDataQuantitative(String feature, long assayID, String[] sampleIDs) { |
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58 | return new HashMap(); |
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59 | } |
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60 | |
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61 | |
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62 | /** |
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63 | * Testing REST. Remove when connection to nbx5 is established. |
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64 | * |
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65 | * @return list of ClinicalFloatData |
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66 | */ |
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67 | public Object getFeatures() { |
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68 | // return request( "features" ) |
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69 | return getStudiesForKeyword("ldl") |
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70 | } |
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71 | |
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72 | |
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73 | /** |
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74 | * For a string for the searchable plugin. |
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75 | * This works for one keyeword, but protection should be built in using |
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76 | * the methods that searchable uses for building query strings. |
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77 | * |
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78 | * @return list of ClinicalFloatData |
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79 | */ |
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80 | private String getSearchable( keyword ) { |
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81 | return "?submit=Query&q=" + keyword |
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82 | } |
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83 | |
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84 | |
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85 | /** |
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86 | * Get all meassurements that contain a given keyword as feature. |
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87 | * |
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88 | * @param keyword, the keyword used |
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89 | * @return list of ClinicalFloatData |
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90 | */ |
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91 | public String getStudiesForKeyword( String keyword ) { |
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92 | def resource = "getMeasurementsForValue" |
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93 | request( resource + getSearchable(keyword) ) |
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94 | } |
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95 | |
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96 | |
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97 | /** |
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98 | * Get all meassurements that contain a given keyword as feature. |
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99 | * |
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100 | * @param keyword, the keyword used |
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101 | * @return list of ClinicalFloatData |
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102 | */ |
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103 | public Object getMeasurementsResource( String keyword ) { |
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104 | def url = new URL( ServerURL + "/" + getSearchable(keyword) ) |
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105 | return JSON.parse( url.newReader() ) |
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106 | } |
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107 | |
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108 | |
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109 | public void getMeasurementsForValueResource() { |
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110 | } |
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111 | |
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112 | |
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113 | public void getMeasurementsForRangeResource() { |
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114 | } |
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115 | |
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116 | |
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117 | public void getDataSimple() { |
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118 | } |
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119 | |
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120 | |
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121 | |
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122 | |
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123 | |
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124 | |
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125 | /** Send a request for the REST resource to the server and deliver the |
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126 | * resulting JSON object. (This is just a convenience method.) |
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127 | * |
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128 | * @param resource: the name of the resource including parameters |
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129 | * @return JSON object |
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130 | */ |
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131 | private Object request( String resource ) { |
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132 | def url = new URL( ServerURL + "/" + resource ); |
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133 | return JSON.parse( url.newReader() ); |
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134 | } |
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135 | |
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136 | |
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137 | |
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138 | |
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139 | |
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140 | } |
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