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23 """The Auto relaxation data saveframe category.
24
25 For example, see http://www.bmrb.wisc.edu/dictionary/3.1html/SaveFramePage.html#auto_relaxation.
26 """
27
28
29 from bmrblib.base_classes import BaseSaveframe, TagCategory, TagCategoryFree
30
31
33 """The Auto relaxation data saveframe class."""
34
35
36 name = 'auto'
37 sf_label = 'auto_relaxation'
38
47
48
50 """Perform some saveframe specific operations prior to XML creation."""
51
52
53 if self.data_type == 'R1':
54 self.coherence = 'Iz'
55 self.coherence_common_name = 'R1'
56 elif self.data_type == 'R2':
57 self.coherence = 'I+'
58 self.coherence_common_name = 'R2'
59 else:
60 raise NameError("The data type '%s' is not one of ['R1', 'R2']." % data_type)
61
62
63 self.sf_framecode = '%s MHz %s relaxation %s' % (self.frq, self.data_type, self.count)
64
65
67 """Base class for the AutoRelaxationList tag category."""
68
70 """Setup the AutoRelaxationList tag category.
71
72 @param sf: The saveframe object.
73 @type sf: saveframe instance
74 """
75
76
77 super(AutoRelaxationList, self).__init__(sf)
78
79
80 self.tag_category_label = 'Auto_relaxation_list'
81
82
83 self.add(key='EntryID', var_name='entry_id', format='str')
84 self.add(key='AutoRelaxationListID', var_name='count_str', format='int')
85 self.add(key='DataFileName', var_name='data_file_name', format='str')
86 self.add(key='SampleConditionListID', var_name='sample_cond_list_id', format='int')
87 self.add(key='SampleConditionListLabel', var_name='sample_cond_list_label', format='str', default='$conditions_1')
88 self.add(key='TempCalibrationMethod', var_name='temp_calibration', format='str', missing=False)
89 self.add(key='TempControlMethod', var_name='temp_control', format='str', missing=False)
90 self.add(key='SpectrometerFrequency1H', var_name='frq', format='float')
91 self.add(key='CommonRelaxationTypeName', var_name='coherence_common_name', format='str')
92 self.add(key='RelaxationCoherenceType', var_name='coherence', format='str')
93 self.add(key='RelaxationValUnits', var_name='units', format='str', default='s-1')
94 self.add(key='RelaxationValType', var_name='peak_intensity_type', format='str', missing=False)
95 self.add(key='RexUnits', var_name='rex_units', format='str')
96 self.add(key='Details', var_name='details', format='str')
97 self.add(key='TextDataFormat', var_name='text_data_format', format='str')
98 self.add(key='TextData', var_name='text_data', format='str')
99
100
101
103 """Base class for the AutoRelaxationExperiment tag category."""
104
106 """Setup the AutoRelaxationExperiment tag category.
107
108 @param sf: The saveframe object.
109 @type sf: saveframe instance
110 """
111
112
113 super(AutoRelaxationExperiment, self).__init__(sf)
114
115
116 self.tag_category_label = 'Auto_relaxation_experiment'
117
118
119 self.add(key='ExperimentID', var_name='experiment_id', format='int')
120 self.add(key='ExperimentName', var_name='experiment_name', format='str')
121 self.add(key='SampleID', var_name='sample_id', format='int')
122 self.add(key='SampleLabel', var_name='sample_label', format='str', default='$sample_1')
123 self.add(key='SampleState', var_name='sample_state', format='str')
124 self.add(key='EntryID', var_name='entry_id', format='str')
125 self.add(key='AutoRelaxationListID', var_name='heteronucl_t1_list_id', format='int')
126
127
128
130 """Base class for the AutoRelaxationSoftware tag category."""
131
133 """Setup the AutoRelaxationSoftware tag category.
134
135 @param sf: The saveframe object.
136 @type sf: saveframe instance
137 """
138
139
140 super(AutoRelaxationSoftware, self).__init__(sf)
141
142
143 self.tag_category_label = 'Auto_relaxation_software'
144
145
146 self.add(key='SoftwareID', var_name='software_id', format='int')
147 self.add(key='SoftwareLabel', var_name='software_label', format='str')
148 self.add(key='MethodID', var_name='method_id', format='int')
149 self.add(key='MethodLabel', var_name='method_label', format='str')
150 self.add(key='EntryID', var_name='entry_id', format='str')
151 self.add(key='AutoRelaxationListID', var_name='heteronucl_t1_list_id', format='int')
152
153
154
156 """Base class for the AutoRelaxation tag category."""
157
159 """Setup the AutoRelaxation tag category.
160
161 @param sf: The saveframe object.
162 @type sf: saveframe instance
163 """
164
165
166 super(AutoRelaxation, self).__init__(sf)
167
168
169 self.tag_category_label = 'Auto_relaxation'
170
171
172 self.add(key='AutoRelaxationID', var_name='data_ids', format='int')
173 self.add(key='AssemblyID', var_name='assembly_ids', format='int')
174 self.add(key='AssemblyAtomID', var_name='assembly_atom_ids', format='int')
175 self.add(key='EntityAssemblyID', var_name='entity_assembly_ids', format='int')
176 self.add(key='EntityID', var_name='entity_ids', format='int', missing=False)
177 self.add(key='CompIndexID', var_name='res_nums', format='int', missing=False)
178 self.add(key='SeqID', var_name='seq_id', format='int')
179 self.add(key='CompID', var_name='res_names', format='str', missing=False)
180 self.add(key='AtomID', var_name='atom_names', format='str', missing=False)
181 self.add(key='AtomType', var_name='atom_types', format='str')
182 self.add(key='AtomIsotopeNumber', var_name='isotope', format='int')
183 self.add(key='Val', var_name='data', format='float')
184 self.add(key='ValErr', var_name='errors', format='float')
185 self.add(key='RexVal', var_name='rex_val', format='float')
186 self.add(key='RexErr', var_name='rex_err', format='float')
187 self.add(key='ResonanceID', var_name='resonance_id', format='int')
188 self.add(key='AuthEntityAssemblyID', var_name='auth_entity_assembly_id', format='str')
189 self.add(key='AuthSeqID', var_name='auth_seq_id', format='str')
190 self.add(key='AuthCompID', var_name='auth_atom_id', format='str')
191 self.add(key='AuthAtomID', var_name='auth_atom_id', format='str')
192 self.add(key='EntryID', var_name='entry_id', format='str')
193 self.add(key='AutoRelaxationListID', var_name='count_str', format='int')
194