py-neuromodulation 0.0.2__py3-none-any.whl → 0.0.3__py3-none-any.whl

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Files changed (204) hide show
  1. docs/build/_downloads/09df217f95985497f45d69e2d4bdc5b1/plot_2_example_add_feature.py +68 -0
  2. docs/build/_downloads/3b4900a2b2818ff30362215b76f7d5eb/plot_1_example_BIDS.py +233 -0
  3. docs/build/_downloads/7e92dd2e6cc86b239d14cafad972ae4f/plot_3_example_sharpwave_analysis.py +219 -0
  4. docs/build/_downloads/c2db0bf2b334d541b00662b991682256/plot_6_real_time_demo.py +97 -0
  5. docs/build/_downloads/ce3914826f782cbd1ea8fd024eaf0ac3/plot_5_example_rmap_computing.py +64 -0
  6. docs/build/_downloads/da36848a41e6a3235d91fb7cfb6d59b4/plot_0_first_demo.py +192 -0
  7. docs/build/_downloads/eaa4305c75b19a1e2eea941f742a6331/plot_4_example_gridPointProjection.py +210 -0
  8. docs/build/html/_downloads/09df217f95985497f45d69e2d4bdc5b1/plot_2_example_add_feature.py +68 -0
  9. docs/build/html/_downloads/3b4900a2b2818ff30362215b76f7d5eb/plot_1_example_BIDS.py +239 -0
  10. docs/build/html/_downloads/7e92dd2e6cc86b239d14cafad972ae4f/plot_3_example_sharpwave_analysis.py +219 -0
  11. docs/build/html/_downloads/c2db0bf2b334d541b00662b991682256/plot_6_real_time_demo.py +97 -0
  12. docs/build/html/_downloads/ce3914826f782cbd1ea8fd024eaf0ac3/plot_5_example_rmap_computing.py +64 -0
  13. docs/build/html/_downloads/da36848a41e6a3235d91fb7cfb6d59b4/plot_0_first_demo.py +192 -0
  14. docs/build/html/_downloads/eaa4305c75b19a1e2eea941f742a6331/plot_4_example_gridPointProjection.py +210 -0
  15. docs/source/_build/html/_downloads/09df217f95985497f45d69e2d4bdc5b1/plot_2_example_add_feature.py +76 -0
  16. docs/source/_build/html/_downloads/0d0d0a76e8f648d5d3cbc47da6351932/plot_real_time_demo.py +97 -0
  17. docs/source/_build/html/_downloads/3b4900a2b2818ff30362215b76f7d5eb/plot_1_example_BIDS.py +240 -0
  18. docs/source/_build/html/_downloads/5d73cadc59a8805c47e3b84063afc157/plot_example_BIDS.py +233 -0
  19. docs/source/_build/html/_downloads/7660317fa5a6bfbd12fcca9961457fc4/plot_example_rmap_computing.py +63 -0
  20. docs/source/_build/html/_downloads/7e92dd2e6cc86b239d14cafad972ae4f/plot_3_example_sharpwave_analysis.py +219 -0
  21. docs/source/_build/html/_downloads/839e5b319379f7fd9e867deb00fd797f/plot_example_gridPointProjection.py +210 -0
  22. docs/source/_build/html/_downloads/ae8be19afe5e559f011fc9b138968ba0/plot_first_demo.py +192 -0
  23. docs/source/_build/html/_downloads/b8b06cacc17969d3725a0b6f1d7741c5/plot_example_sharpwave_analysis.py +219 -0
  24. docs/source/_build/html/_downloads/c2db0bf2b334d541b00662b991682256/plot_6_real_time_demo.py +121 -0
  25. docs/source/_build/html/_downloads/c31a86c0b68cb4167d968091ace8080d/plot_example_add_feature.py +68 -0
  26. docs/source/_build/html/_downloads/ce3914826f782cbd1ea8fd024eaf0ac3/plot_5_example_rmap_computing.py +64 -0
  27. docs/source/_build/html/_downloads/da36848a41e6a3235d91fb7cfb6d59b4/plot_0_first_demo.py +189 -0
  28. docs/source/_build/html/_downloads/eaa4305c75b19a1e2eea941f742a6331/plot_4_example_gridPointProjection.py +210 -0
  29. docs/source/auto_examples/plot_0_first_demo.py +189 -0
  30. docs/source/auto_examples/plot_1_example_BIDS.py +240 -0
  31. docs/source/auto_examples/plot_2_example_add_feature.py +76 -0
  32. docs/source/auto_examples/plot_3_example_sharpwave_analysis.py +219 -0
  33. docs/source/auto_examples/plot_4_example_gridPointProjection.py +210 -0
  34. docs/source/auto_examples/plot_5_example_rmap_computing.py +64 -0
  35. docs/source/auto_examples/plot_6_real_time_demo.py +121 -0
  36. docs/source/conf.py +105 -0
  37. examples/plot_0_first_demo.py +189 -0
  38. examples/plot_1_example_BIDS.py +240 -0
  39. examples/plot_2_example_add_feature.py +76 -0
  40. examples/plot_3_example_sharpwave_analysis.py +219 -0
  41. examples/plot_4_example_gridPointProjection.py +210 -0
  42. examples/plot_5_example_rmap_computing.py +64 -0
  43. examples/plot_6_real_time_demo.py +121 -0
  44. packages/realtime_decoding/build/lib/realtime_decoding/__init__.py +4 -0
  45. packages/realtime_decoding/build/lib/realtime_decoding/decoder.py +104 -0
  46. packages/realtime_decoding/build/lib/realtime_decoding/features.py +163 -0
  47. packages/realtime_decoding/build/lib/realtime_decoding/helpers.py +15 -0
  48. packages/realtime_decoding/build/lib/realtime_decoding/run_decoding.py +345 -0
  49. packages/realtime_decoding/build/lib/realtime_decoding/trainer.py +54 -0
  50. packages/tmsi/build/lib/TMSiFileFormats/__init__.py +37 -0
  51. packages/tmsi/build/lib/TMSiFileFormats/file_formats/__init__.py +36 -0
  52. packages/tmsi/build/lib/TMSiFileFormats/file_formats/lsl_stream_writer.py +200 -0
  53. packages/tmsi/build/lib/TMSiFileFormats/file_formats/poly5_file_writer.py +496 -0
  54. packages/tmsi/build/lib/TMSiFileFormats/file_formats/poly5_to_edf_converter.py +236 -0
  55. packages/tmsi/build/lib/TMSiFileFormats/file_formats/xdf_file_writer.py +977 -0
  56. packages/tmsi/build/lib/TMSiFileFormats/file_readers/__init__.py +35 -0
  57. packages/tmsi/build/lib/TMSiFileFormats/file_readers/edf_reader.py +116 -0
  58. packages/tmsi/build/lib/TMSiFileFormats/file_readers/poly5reader.py +294 -0
  59. packages/tmsi/build/lib/TMSiFileFormats/file_readers/xdf_reader.py +229 -0
  60. packages/tmsi/build/lib/TMSiFileFormats/file_writer.py +102 -0
  61. packages/tmsi/build/lib/TMSiPlotters/__init__.py +2 -0
  62. packages/tmsi/build/lib/TMSiPlotters/gui/__init__.py +39 -0
  63. packages/tmsi/build/lib/TMSiPlotters/gui/_plotter_gui.py +234 -0
  64. packages/tmsi/build/lib/TMSiPlotters/gui/plotting_gui.py +440 -0
  65. packages/tmsi/build/lib/TMSiPlotters/plotters/__init__.py +44 -0
  66. packages/tmsi/build/lib/TMSiPlotters/plotters/hd_emg_plotter.py +446 -0
  67. packages/tmsi/build/lib/TMSiPlotters/plotters/impedance_plotter.py +589 -0
  68. packages/tmsi/build/lib/TMSiPlotters/plotters/signal_plotter.py +1326 -0
  69. packages/tmsi/build/lib/TMSiSDK/__init__.py +54 -0
  70. packages/tmsi/build/lib/TMSiSDK/device.py +588 -0
  71. packages/tmsi/build/lib/TMSiSDK/devices/__init__.py +34 -0
  72. packages/tmsi/build/lib/TMSiSDK/devices/saga/TMSi_Device_API.py +1764 -0
  73. packages/tmsi/build/lib/TMSiSDK/devices/saga/__init__.py +34 -0
  74. packages/tmsi/build/lib/TMSiSDK/devices/saga/saga_device.py +1366 -0
  75. packages/tmsi/build/lib/TMSiSDK/devices/saga/saga_types.py +520 -0
  76. packages/tmsi/build/lib/TMSiSDK/devices/saga/xml_saga_config.py +165 -0
  77. packages/tmsi/build/lib/TMSiSDK/error.py +95 -0
  78. packages/tmsi/build/lib/TMSiSDK/sample_data.py +63 -0
  79. packages/tmsi/build/lib/TMSiSDK/sample_data_server.py +99 -0
  80. packages/tmsi/build/lib/TMSiSDK/settings.py +45 -0
  81. packages/tmsi/build/lib/TMSiSDK/tmsi_device.py +111 -0
  82. packages/tmsi/build/lib/__init__.py +4 -0
  83. packages/tmsi/build/lib/apex_sdk/__init__.py +34 -0
  84. packages/tmsi/build/lib/apex_sdk/device/__init__.py +41 -0
  85. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_API.py +1009 -0
  86. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_API_enums.py +239 -0
  87. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_API_structures.py +668 -0
  88. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_device.py +1611 -0
  89. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_dongle.py +38 -0
  90. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_event_reader.py +57 -0
  91. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_structures/apex_channel.py +44 -0
  92. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_structures/apex_config.py +150 -0
  93. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_structures/apex_const.py +36 -0
  94. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_structures/apex_impedance_channel.py +48 -0
  95. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_structures/apex_info.py +108 -0
  96. packages/tmsi/build/lib/apex_sdk/device/devices/apex/apex_structures/dongle_info.py +39 -0
  97. packages/tmsi/build/lib/apex_sdk/device/devices/apex/measurements/download_measurement.py +77 -0
  98. packages/tmsi/build/lib/apex_sdk/device/devices/apex/measurements/eeg_measurement.py +150 -0
  99. packages/tmsi/build/lib/apex_sdk/device/devices/apex/measurements/impedance_measurement.py +129 -0
  100. packages/tmsi/build/lib/apex_sdk/device/threads/conversion_thread.py +59 -0
  101. packages/tmsi/build/lib/apex_sdk/device/threads/sampling_thread.py +57 -0
  102. packages/tmsi/build/lib/apex_sdk/device/tmsi_channel.py +83 -0
  103. packages/tmsi/build/lib/apex_sdk/device/tmsi_device.py +201 -0
  104. packages/tmsi/build/lib/apex_sdk/device/tmsi_device_enums.py +103 -0
  105. packages/tmsi/build/lib/apex_sdk/device/tmsi_dongle.py +43 -0
  106. packages/tmsi/build/lib/apex_sdk/device/tmsi_event_reader.py +50 -0
  107. packages/tmsi/build/lib/apex_sdk/device/tmsi_measurement.py +118 -0
  108. packages/tmsi/build/lib/apex_sdk/sample_data_server/__init__.py +33 -0
  109. packages/tmsi/build/lib/apex_sdk/sample_data_server/event_data.py +44 -0
  110. packages/tmsi/build/lib/apex_sdk/sample_data_server/sample_data.py +50 -0
  111. packages/tmsi/build/lib/apex_sdk/sample_data_server/sample_data_server.py +136 -0
  112. packages/tmsi/build/lib/apex_sdk/tmsi_errors/error.py +126 -0
  113. packages/tmsi/build/lib/apex_sdk/tmsi_sdk.py +113 -0
  114. packages/tmsi/build/lib/apex_sdk/tmsi_utilities/apex/apex_structure_generator.py +134 -0
  115. packages/tmsi/build/lib/apex_sdk/tmsi_utilities/decorators.py +60 -0
  116. packages/tmsi/build/lib/apex_sdk/tmsi_utilities/logger_filter.py +42 -0
  117. packages/tmsi/build/lib/apex_sdk/tmsi_utilities/singleton.py +42 -0
  118. packages/tmsi/build/lib/apex_sdk/tmsi_utilities/support_functions.py +72 -0
  119. packages/tmsi/build/lib/apex_sdk/tmsi_utilities/tmsi_logger.py +98 -0
  120. py_neuromodulation/{helper.py → _write_example_dataset_helper.py} +1 -1
  121. py_neuromodulation/nm_EpochStream.py +2 -3
  122. py_neuromodulation/nm_IO.py +43 -70
  123. py_neuromodulation/nm_RMAP.py +308 -11
  124. py_neuromodulation/nm_analysis.py +1 -1
  125. py_neuromodulation/nm_artifacts.py +25 -0
  126. py_neuromodulation/nm_bispectra.py +64 -29
  127. py_neuromodulation/nm_bursts.py +44 -30
  128. py_neuromodulation/nm_coherence.py +2 -1
  129. py_neuromodulation/nm_features.py +4 -2
  130. py_neuromodulation/nm_filter.py +63 -32
  131. py_neuromodulation/nm_filter_preprocessing.py +91 -0
  132. py_neuromodulation/nm_fooof.py +47 -29
  133. py_neuromodulation/nm_mne_connectivity.py +1 -1
  134. py_neuromodulation/nm_normalization.py +50 -74
  135. py_neuromodulation/nm_oscillatory.py +151 -31
  136. py_neuromodulation/nm_plots.py +13 -10
  137. py_neuromodulation/nm_rereference.py +10 -8
  138. py_neuromodulation/nm_run_analysis.py +28 -13
  139. py_neuromodulation/nm_sharpwaves.py +103 -136
  140. py_neuromodulation/nm_stats.py +44 -30
  141. py_neuromodulation/nm_stream_abc.py +18 -10
  142. py_neuromodulation/nm_stream_offline.py +181 -40
  143. py_neuromodulation/utils/_logging.py +24 -0
  144. {py_neuromodulation-0.0.2.dist-info → py_neuromodulation-0.0.3.dist-info}/METADATA +182 -142
  145. py_neuromodulation-0.0.3.dist-info/RECORD +188 -0
  146. {py_neuromodulation-0.0.2.dist-info → py_neuromodulation-0.0.3.dist-info}/WHEEL +2 -1
  147. py_neuromodulation-0.0.3.dist-info/top_level.txt +5 -0
  148. tests/__init__.py +0 -0
  149. tests/conftest.py +117 -0
  150. tests/test_all_examples.py +10 -0
  151. tests/test_all_features.py +63 -0
  152. tests/test_bispectra.py +70 -0
  153. tests/test_bursts.py +105 -0
  154. tests/test_feature_sampling_rates.py +143 -0
  155. tests/test_fooof.py +16 -0
  156. tests/test_initalization_offline_stream.py +41 -0
  157. tests/test_multiprocessing.py +58 -0
  158. tests/test_nan_values.py +29 -0
  159. tests/test_nm_filter.py +95 -0
  160. tests/test_nm_resample.py +63 -0
  161. tests/test_normalization_settings.py +146 -0
  162. tests/test_notch_filter.py +31 -0
  163. tests/test_osc_features.py +424 -0
  164. tests/test_preprocessing_filter.py +151 -0
  165. tests/test_rereference.py +171 -0
  166. tests/test_sampling.py +57 -0
  167. tests/test_settings_change_after_init.py +76 -0
  168. tests/test_sharpwave.py +165 -0
  169. tests/test_target_channel_add.py +100 -0
  170. tests/test_timing.py +80 -0
  171. py_neuromodulation/data/README +0 -6
  172. py_neuromodulation/data/dataset_description.json +0 -8
  173. py_neuromodulation/data/derivatives/sub-testsub_ses-EphysMedOff_task-gripforce_run-0/MOV_aligned_features_ch_ECOG_RIGHT_0_all.png +0 -0
  174. py_neuromodulation/data/derivatives/sub-testsub_ses-EphysMedOff_task-gripforce_run-0/all_feature_plt.pdf +0 -0
  175. py_neuromodulation/data/derivatives/sub-testsub_ses-EphysMedOff_task-gripforce_run-0/sub-testsub_ses-EphysMedOff_task-gripforce_run-0_FEATURES.csv +0 -182
  176. py_neuromodulation/data/derivatives/sub-testsub_ses-EphysMedOff_task-gripforce_run-0/sub-testsub_ses-EphysMedOff_task-gripforce_run-0_LM_ML_RES.p +0 -0
  177. py_neuromodulation/data/derivatives/sub-testsub_ses-EphysMedOff_task-gripforce_run-0/sub-testsub_ses-EphysMedOff_task-gripforce_run-0_SETTINGS.json +0 -273
  178. py_neuromodulation/data/derivatives/sub-testsub_ses-EphysMedOff_task-gripforce_run-0/sub-testsub_ses-EphysMedOff_task-gripforce_run-0_SIDECAR.json +0 -6
  179. py_neuromodulation/data/derivatives/sub-testsub_ses-EphysMedOff_task-gripforce_run-0/sub-testsub_ses-EphysMedOff_task-gripforce_run-0_decoding_performance.png +0 -0
  180. py_neuromodulation/data/derivatives/sub-testsub_ses-EphysMedOff_task-gripforce_run-0/sub-testsub_ses-EphysMedOff_task-gripforce_run-0_nm_channels.csv +0 -11
  181. py_neuromodulation/data/participants.json +0 -32
  182. py_neuromodulation/data/participants.tsv +0 -2
  183. py_neuromodulation/data/sub-testsub/ses-EphysMedOff/ieeg/sub-testsub_ses-EphysMedOff_space-mni_coordsystem.json +0 -5
  184. py_neuromodulation/data/sub-testsub/ses-EphysMedOff/ieeg/sub-testsub_ses-EphysMedOff_space-mni_electrodes.tsv +0 -11
  185. py_neuromodulation/data/sub-testsub/ses-EphysMedOff/ieeg/sub-testsub_ses-EphysMedOff_task-gripforce_run-0_channels.tsv +0 -11
  186. py_neuromodulation/data/sub-testsub/ses-EphysMedOff/ieeg/sub-testsub_ses-EphysMedOff_task-gripforce_run-0_ieeg.eeg +0 -0
  187. py_neuromodulation/data/sub-testsub/ses-EphysMedOff/ieeg/sub-testsub_ses-EphysMedOff_task-gripforce_run-0_ieeg.json +0 -18
  188. py_neuromodulation/data/sub-testsub/ses-EphysMedOff/ieeg/sub-testsub_ses-EphysMedOff_task-gripforce_run-0_ieeg.vhdr +0 -35
  189. py_neuromodulation/data/sub-testsub/ses-EphysMedOff/ieeg/sub-testsub_ses-EphysMedOff_task-gripforce_run-0_ieeg.vmrk +0 -13
  190. py_neuromodulation/data/sub-testsub/ses-EphysMedOff/sub-testsub_ses-EphysMedOff_scans.tsv +0 -2
  191. py_neuromodulation/grid_cortex.tsv +0 -40
  192. py_neuromodulation/grid_subcortex.tsv +0 -1429
  193. py_neuromodulation/nm_settings.json +0 -290
  194. py_neuromodulation/plots/STN_surf.mat +0 -0
  195. py_neuromodulation/plots/Vertices.mat +0 -0
  196. py_neuromodulation/plots/faces.mat +0 -0
  197. py_neuromodulation/plots/grid.mat +0 -0
  198. py_neuromodulation/py_neuromodulation.egg-info/PKG-INFO +0 -104
  199. py_neuromodulation/py_neuromodulation.egg-info/dependency_links.txt +0 -1
  200. py_neuromodulation/py_neuromodulation.egg-info/requires.txt +0 -26
  201. py_neuromodulation/py_neuromodulation.egg-info/top_level.txt +0 -1
  202. py_neuromodulation-0.0.2.dist-info/RECORD +0 -73
  203. /py_neuromodulation/{py_neuromodulation.egg-info/SOURCES.txt → utils/__init__.py} +0 -0
  204. {py_neuromodulation-0.0.2.dist-info → py_neuromodulation-0.0.3.dist-info}/LICENSE +0 -0
@@ -0,0 +1,34 @@
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+ """
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+ (c) 2022 Twente Medical Systems International B.V., Oldenzaal The Netherlands
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+
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+ Licensed under the Apache License, Version 2.0 (the "License");
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+ you may not use this file except in compliance with the License.
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+ You may obtain a copy of the License at
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+
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+ http://www.apache.org/licenses/LICENSE-2.0
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+
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+ Unless required by applicable law or agreed to in writing, software
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+ distributed under the License is distributed on an "AS IS" BASIS,
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+ WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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+ See the License for the specific language governing permissions and
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+ limitations under the License.
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+
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+ ####### # # ##### #
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+ # ## ## #
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+ # # # # # # #
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+ # # # # ##### #
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+ # # # # #
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+ # # # # #
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+ # # # ##### #
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+
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+ /**
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+ * @file ${__init__.py}
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+ * @brief Initialisation of the saga_device directory classes.
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+ *
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+ */
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+
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+
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+ """
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+ from .saga_device import SagaDevice
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+ from .xml_saga_config import xml_write_config, xml_read_config
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+ from . import saga_device, saga_types, xml_saga_config