mlatom 3.7.0__tar.gz → 3.8.0__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (123) hide show
  1. {mlatom-3.7.0/src/mlatom.egg-info → mlatom-3.8.0}/PKG-INFO +3 -3
  2. {mlatom-3.7.0 → mlatom-3.8.0}/README.md +2 -2
  3. {mlatom-3.7.0 → mlatom-3.8.0}/setup.py +1 -1
  4. mlatom-3.8.0/src/mlatom/GICnet.py +965 -0
  5. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatom.py +2 -2
  6. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/al.py +18 -9
  7. mlatom-3.8.0/src/mlatom/functionsGICnet.py +968 -0
  8. {mlatom-3.7.0 → mlatom-3.8.0/src/mlatom.egg-info}/PKG-INFO +3 -3
  9. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom.egg-info/SOURCES.txt +2 -0
  10. {mlatom-3.7.0 → mlatom-3.8.0}/LICENSE.txt +0 -0
  11. {mlatom-3.7.0 → mlatom-3.8.0}/setup.cfg +0 -0
  12. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLTPA.py +0 -0
  13. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/ML_NEA.py +0 -0
  14. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF +0 -0
  15. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/A_KRR.f90 +0 -0
  16. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/A_KRR_kernel.f90 +0 -0
  17. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/D_CoulombMatrix.f90 +0 -0
  18. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/D_ID.f90 +0 -0
  19. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/D_rel2eq.f90 +0 -0
  20. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/MLatomF.f90 +0 -0
  21. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/MLatomFInfo.f90 +0 -0
  22. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/MLmodel.f90 +0 -0
  23. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/Makefile +0 -0
  24. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/Makefile.intel +0 -0
  25. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/__init__.py +0 -0
  26. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/analyze.f90 +0 -0
  27. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/constants.f90 +0 -0
  28. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/cs.cpp +0 -0
  29. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/dataset.f90 +0 -0
  30. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/mathUtils.f90 +0 -0
  31. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/molDescr.f90 +0 -0
  32. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/optionsModule.f90 +0 -0
  33. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/precision.f90 +0 -0
  34. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/recover.sh +0 -0
  35. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/sampling.f90 +0 -0
  36. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/statistics.f90 +0 -0
  37. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/stopper.f90 +0 -0
  38. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/strings.f90 +0 -0
  39. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/timing.f90 +0 -0
  40. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLatomF_src/types.f90 +0 -0
  41. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/MLtasks.py +0 -0
  42. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/__init__.py +0 -0
  43. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1.py +0 -0
  44. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/__init__.py +0 -0
  45. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_cc_cv0.pt +0 -0
  46. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_cc_cv1.pt +0 -0
  47. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_cc_cv2.pt +0 -0
  48. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_cc_cv3.pt +0 -0
  49. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_cc_cv4.pt +0 -0
  50. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_cc_cv5.pt +0 -0
  51. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_cc_cv6.pt +0 -0
  52. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_cc_cv7.pt +0 -0
  53. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_dft_cv0.pt +0 -0
  54. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_dft_cv1.pt +0 -0
  55. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_dft_cv2.pt +0 -0
  56. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_dft_cv3.pt +0 -0
  57. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_dft_cv4.pt +0 -0
  58. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_dft_cv5.pt +0 -0
  59. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_dft_cv6.pt +0 -0
  60. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/aiqm1_model/aiqm1_dft_cv7.pt +0 -0
  61. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/al_utils.py +0 -0
  62. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/args_class.py +0 -0
  63. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/ccsdtstarcbs.py +0 -0
  64. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/composite_methods.py +0 -0
  65. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/constants.py +0 -0
  66. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/conversions.py +0 -0
  67. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/cs.so +0 -0
  68. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/data.py +0 -0
  69. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/decorators.py +0 -0
  70. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/doc.py +0 -0
  71. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/fortran/KREG.f90 +0 -0
  72. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/fortran/__init__.py +0 -0
  73. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/fortran/compile.py +0 -0
  74. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/fortran/mathUtils.f90 +0 -0
  75. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/fortran/stopper.f90 +0 -0
  76. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/header.py +0 -0
  77. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/initial_conditions.py +0 -0
  78. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interface_MLatomF.py +0 -0
  79. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/__init__.py +0 -0
  80. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/ase_interface.py +0 -0
  81. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/columbus_interface.py +0 -0
  82. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/dftd4_interface.py +0 -0
  83. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/dpmd_interface.py +0 -0
  84. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/gap_interface.py +0 -0
  85. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/gaussian_interface.py +0 -0
  86. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/mace_interface.py +0 -0
  87. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/mndo_interface.py +0 -0
  88. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/orca_interface.py +0 -0
  89. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/physnet_interface.py +0 -0
  90. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/pyscf_interface.py +0 -0
  91. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/sgdml_interface.py +0 -0
  92. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/sparrow_interface.py +0 -0
  93. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/torchani_interface.py +0 -0
  94. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/turbomole_interface.py +0 -0
  95. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/interfaces/xtb_interface.py +0 -0
  96. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/kreg_api.py +0 -0
  97. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/log.py +0 -0
  98. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/md.py +0 -0
  99. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/md2vibr.py +0 -0
  100. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/md2vibr_cmd.py +0 -0
  101. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/md_cmd.py +0 -0
  102. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/md_parallel.py +0 -0
  103. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/mlatom_gui.py +0 -0
  104. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/mltpa/__init__.py +0 -0
  105. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/mltpa/mff.txt +0 -0
  106. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/mltpa/mltpa2022_2.pkl +0 -0
  107. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/mltpa/mltpa2022_2_new_.pkl +0 -0
  108. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/models.py +0 -0
  109. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/namd.py +0 -0
  110. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/plot.py +0 -0
  111. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/ref.json +0 -0
  112. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/shell_cmd.py +0 -0
  113. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/simulations.py +0 -0
  114. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/sliceData.py +0 -0
  115. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/stats.py +0 -0
  116. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/stopper.py +0 -0
  117. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/thermostat.py +0 -0
  118. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/utils.py +0 -0
  119. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom/xyz.py +0 -0
  120. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom.egg-info/dependency_links.txt +0 -0
  121. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom.egg-info/entry_points.txt +0 -0
  122. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom.egg-info/requires.txt +0 -0
  123. {mlatom-3.7.0 → mlatom-3.8.0}/src/mlatom.egg-info/top_level.txt +0 -0
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: mlatom
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- Version: 3.7.0
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+ Version: 3.8.0
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  Summary: A Package for Atomistic Simulations with Machine Learning
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  Home-page: http://mlatom.com
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  Author: Pavlo O. Dral
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  # About Program
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  MLatom: a Package for Atomistic Simulations with Machine Learning
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- Version 3.7.0
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+ Version 3.8.0
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  **Official website**: http://mlatom.com/
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  **Manual**: http://mlatom.com/manual/
@@ -60,7 +60,7 @@ When this Software or its derivatives are used in scientific publications, it sh
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  * Pavlo O. Dral, Fuchun Ge, Yi-Fan Hou, Peikun Zheng, Yuxinxin Chen, Mario Barbatti, Olexandr Isayev, Cheng Wang, Bao-Xin Xue, Max Pinheiro Jr, Yuming Su, Yiheng Dai, Yangtao Chen, Lina Zhang, Shuang Zhang, Arif Ullah, Quanhao Zhang, Yanchi Ou. [MLatom 3: A Platform for Machine Learning-enhanced Computational Chemistry Simulations and Workflows](https://doi.org/10.1021/acs.jctc.3c01203). *J. Chem. Theory Comput.* **2024**, *20*, 1193--1213.
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  * Pavlo O. Dral, Fuchun Ge, Bao-Xin Xue, Yi-Fan Hou, Max Pinheiro Jr, Jianxing Huang, Mario Barbatti. [MLatom 2: An Integrative Platform for Atomistic Machine Learning](http://doi.org/10.1007/s41061-021-00339-5). *Top. Curr. Chem.* **2021**, *379*, 27.
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  * Pavlo O. Dral. [MLatom: A Program Package for Quantum Chemical Research Assisted by Machine Learning](http://dx.doi.org/10.1002/jcc.26004). *J. Comput. Chem.* **2019**, *40*, 2339--2347.
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- * Pavlo O. Dral, Fuchun Ge, Yi-Fan Hou, Peikun Zheng, Yuxinxin Chen, Bao-Xin Xue, Max Pinheiro Jr, Yuming Su, Yiheng Dai, Yangtao Chen, Shuang Zhang, Lina Zhang, Arif Ullah, Quanhao Zhang, Sebastian V. Pios, Yanchi Ou, MLatom: A Package for Atomistic Simulations with Machine Learning, version 3.7.0, Xiamen University, Xiamen, China, 2013-2024.
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+ * Pavlo O. Dral, Fuchun Ge, Yi-Fan Hou, Peikun Zheng, Yuxinxin Chen, Bao-Xin Xue, Max Pinheiro Jr, Yuming Su, Yiheng Dai, Yangtao Chen, Shuang Zhang, Lina Zhang, Arif Ullah, Quanhao Zhang, Sebastian V. Pios, Yanchi Ou, MLatom: A Package for Atomistic Simulations with Machine Learning, version 3.8.0, Xiamen University, Xiamen, China, 2013-2024.
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  [MLatom.com](http://mlatom.com).
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  The citations for MLatom's interfaces and features shall be eventually
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  # About Program
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  MLatom: a Package for Atomistic Simulations with Machine Learning
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- Version 3.7.0
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+ Version 3.8.0
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  **Official website**: http://mlatom.com/
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  **Manual**: http://mlatom.com/manual/
@@ -34,7 +34,7 @@ When this Software or its derivatives are used in scientific publications, it sh
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  * Pavlo O. Dral, Fuchun Ge, Yi-Fan Hou, Peikun Zheng, Yuxinxin Chen, Mario Barbatti, Olexandr Isayev, Cheng Wang, Bao-Xin Xue, Max Pinheiro Jr, Yuming Su, Yiheng Dai, Yangtao Chen, Lina Zhang, Shuang Zhang, Arif Ullah, Quanhao Zhang, Yanchi Ou. [MLatom 3: A Platform for Machine Learning-enhanced Computational Chemistry Simulations and Workflows](https://doi.org/10.1021/acs.jctc.3c01203). *J. Chem. Theory Comput.* **2024**, *20*, 1193--1213.
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  * Pavlo O. Dral, Fuchun Ge, Bao-Xin Xue, Yi-Fan Hou, Max Pinheiro Jr, Jianxing Huang, Mario Barbatti. [MLatom 2: An Integrative Platform for Atomistic Machine Learning](http://doi.org/10.1007/s41061-021-00339-5). *Top. Curr. Chem.* **2021**, *379*, 27.
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  * Pavlo O. Dral. [MLatom: A Program Package for Quantum Chemical Research Assisted by Machine Learning](http://dx.doi.org/10.1002/jcc.26004). *J. Comput. Chem.* **2019**, *40*, 2339--2347.
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- * Pavlo O. Dral, Fuchun Ge, Yi-Fan Hou, Peikun Zheng, Yuxinxin Chen, Bao-Xin Xue, Max Pinheiro Jr, Yuming Su, Yiheng Dai, Yangtao Chen, Shuang Zhang, Lina Zhang, Arif Ullah, Quanhao Zhang, Sebastian V. Pios, Yanchi Ou, MLatom: A Package for Atomistic Simulations with Machine Learning, version 3.7.0, Xiamen University, Xiamen, China, 2013-2024.
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+ * Pavlo O. Dral, Fuchun Ge, Yi-Fan Hou, Peikun Zheng, Yuxinxin Chen, Bao-Xin Xue, Max Pinheiro Jr, Yuming Su, Yiheng Dai, Yangtao Chen, Shuang Zhang, Lina Zhang, Arif Ullah, Quanhao Zhang, Sebastian V. Pios, Yanchi Ou, MLatom: A Package for Atomistic Simulations with Machine Learning, version 3.8.0, Xiamen University, Xiamen, China, 2013-2024.
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  [MLatom.com](http://mlatom.com).
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  The citations for MLatom's interfaces and features shall be eventually
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  setup(
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  name = pkg_name,
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  author = "Pavlo O. Dral",
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  author_email = "admin@mlatom.com",
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  license = 'MIT (modified)',