Mercurial > repos > guerler > springsuite

annotate planemo/lib/python3.7/site-packages/schema_salad/tests/test_cg.py @ 1:56ad4e20f292 draft

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"planemo upload commit 6eee67778febed82ddd413c3ca40b3183a3898f1"
author guerler
date Fri, 31 Jul 2020 00:32:28 -0400
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1
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1 import json
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2 import os
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3
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4 import pytest
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5
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6 import schema_salad.metaschema as cg_metaschema
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7 from schema_salad.ref_resolver import file_uri
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8
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9 from .matcher import JsonDiffMatcher
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10 from .util import get_data
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11
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12
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13 def test_load():
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14 doc = {
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15 "type": "record",
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16 "fields": [{"name": "hello", "doc": "Hello test case", "type": "string"}],
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17 }
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18 rs = cg_metaschema.RecordSchema.fromDoc(
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19 doc, "http://example.com/", cg_metaschema.LoadingOptions()
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20 )
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21 assert "record" == rs.type
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22 assert "http://example.com/#hello" == rs.fields[0].name
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23 assert "Hello test case" == rs.fields[0].doc
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24 assert "string" == rs.fields[0].type
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25 assert {
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26 "type": "record",
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27 "fields": [
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28 {
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29 "name": "http://example.com/#hello",
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30 "doc": "Hello test case",
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31 "type": "string",
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32 }
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33 ],
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34 } == rs.save()
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35
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36
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37 def test_err():
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38 doc = {"doc": "Hello test case", "type": "string"}
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39 with pytest.raises(cg_metaschema.ValidationException):
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40 cg_metaschema.RecordField.fromDoc(doc, "", cg_metaschema.LoadingOptions())
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41
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42
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43 def test_include():
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44 doc = {"name": "hello", "doc": [{"$include": "hello.txt"}], "type": "documentation"}
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45 rf = cg_metaschema.Documentation.fromDoc(
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46 doc,
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47 "http://example.com/",
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48 cg_metaschema.LoadingOptions(fileuri=file_uri(get_data("tests/_"))),
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49 )
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50 assert "http://example.com/#hello" == rf.name
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51 assert ["hello world!\n"] == rf.doc
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52 assert "documentation" == rf.type
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53 assert {
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54 "name": "http://example.com/#hello",
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55 "doc": ["hello world!\n"],
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56 "type": "documentation",
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57 } == rf.save()
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58
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59
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60 def test_import():
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61 doc = {"type": "record", "fields": [{"$import": "hellofield.yml"}]}
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62 lead = file_uri(os.path.normpath(get_data("tests")))
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63 rs = cg_metaschema.RecordSchema.fromDoc(
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64 doc, "http://example.com/", cg_metaschema.LoadingOptions(fileuri=lead + "/_")
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65 )
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66 assert "record" == rs.type
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67 assert lead + "/hellofield.yml#hello" == rs.fields[0].name
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68 assert "hello world!\n" == rs.fields[0].doc
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69 assert "string" == rs.fields[0].type
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70 assert {
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71 "type": "record",
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72 "fields": [
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73 {
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74 "name": lead + "/hellofield.yml#hello",
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75 "doc": "hello world!\n",
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76 "type": "string",
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77 }
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78 ],
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79 } == rs.save()
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80
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81
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82 maxDiff = None
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83
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84
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85 def test_import2():
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86 rs = cg_metaschema.load_document(
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87 file_uri(get_data("tests/docimp/d1.yml")), "", cg_metaschema.LoadingOptions()
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88 )
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89 assert [
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90 {
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91 "doc": [
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92 u"*Hello*",
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93 "hello 2",
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94 u"*dee dee dee five*",
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95 "hello 3",
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96 "hello 4",
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97 u"*dee dee dee five*",
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98 "hello 5",
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99 ],
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100 "type": "documentation",
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101 "name": file_uri(get_data("tests/docimp/d1.yml"))
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102 + "#Semantic_Annotations_for_Linked_Avro_Data",
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103 }
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104 ] == [r.save() for r in rs]
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105
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106
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107 def test_err2():
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108 doc = {
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109 "type": "rucord",
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110 "fields": [{"name": "hello", "doc": "Hello test case", "type": "string"}],
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111 }
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112 with pytest.raises(cg_metaschema.ValidationException):
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113 cg_metaschema.RecordSchema.fromDoc(doc, "", cg_metaschema.LoadingOptions())
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114
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115
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116 def test_idmap():
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117 doc = {
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118 "type": "record",
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119 "fields": {"hello": {"doc": "Hello test case", "type": "string"}},
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120 }
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121 rs = cg_metaschema.RecordSchema.fromDoc(
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122 doc, "http://example.com/", cg_metaschema.LoadingOptions()
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123 )
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124 assert "record" == rs.type
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125 assert "http://example.com/#hello" == rs.fields[0].name
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126 assert "Hello test case" == rs.fields[0].doc
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127 assert "string" == rs.fields[0].type
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128 assert {
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129 "type": "record",
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130 "fields": [
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131 {
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132 "name": "http://example.com/#hello",
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133 "doc": "Hello test case",
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134 "type": "string",
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135 }
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136 ],
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137 } == rs.save()
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138
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139
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140 def test_idmap2():
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141 doc = {"type": "record", "fields": {"hello": "string"}}
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142 rs = cg_metaschema.RecordSchema.fromDoc(
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143 doc, "http://example.com/", cg_metaschema.LoadingOptions()
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144 )
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145 assert "record" == rs.type
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146 assert "http://example.com/#hello" == rs.fields[0].name
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147 assert rs.fields[0].doc is None
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148 assert "string" == rs.fields[0].type
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149 assert {
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150 "type": "record",
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151 "fields": [{"name": "http://example.com/#hello", "type": "string"}],
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152 } == rs.save()
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153
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154
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155 def test_load_pt():
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156 doc = cg_metaschema.load_document(
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157 file_uri(get_data("tests/pt.yml")), "", cg_metaschema.LoadingOptions()
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158 )
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159 assert [
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160 "https://w3id.org/cwl/salad#null",
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161 "http://www.w3.org/2001/XMLSchema#boolean",
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162 "http://www.w3.org/2001/XMLSchema#int",
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163 "http://www.w3.org/2001/XMLSchema#long",
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164 "http://www.w3.org/2001/XMLSchema#float",
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165 "http://www.w3.org/2001/XMLSchema#double",
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166 "http://www.w3.org/2001/XMLSchema#string",
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167 ] == doc.symbols
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168
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169
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170 def test_load_metaschema():
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171 doc = cg_metaschema.load_document(
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172 file_uri(get_data("metaschema/metaschema.yml")),
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173 "",
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174 cg_metaschema.LoadingOptions(),
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175 )
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176 with open(get_data("tests/metaschema-pre.yml")) as f:
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177 pre = json.load(f)
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178 saved = [d.save(relative_uris=False) for d in doc]
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179 assert saved == JsonDiffMatcher(pre)
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180
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181
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182 def test_load_cwlschema():
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183 doc = cg_metaschema.load_document(
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184 file_uri(get_data("tests/test_schema/CommonWorkflowLanguage.yml")),
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185 "",
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186 cg_metaschema.LoadingOptions(),
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187 )
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188 with open(get_data("tests/cwl-pre.yml")) as f:
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189 pre = json.load(f)
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190 saved = [d.save(relative_uris=False) for d in doc]
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191 assert saved == JsonDiffMatcher(pre)