ena-upload-cli 0.7.3__tar.gz → 0.7.5__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 (111) hide show
  1. {ena_upload_cli-0.7.3/ena_upload_cli.egg-info → ena_upload_cli-0.7.5}/PKG-INFO +17 -6
  2. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/README.md +1 -1
  3. ena_upload_cli-0.7.5/ena_upload/_version.py +1 -0
  4. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/ena_upload.py +1053 -1046
  5. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_experiments.xml +1 -1
  6. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_runs.xml +40 -40
  7. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5/ena_upload_cli.egg-info}/PKG-INFO +17 -6
  8. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload_cli.egg-info/SOURCES.txt +1 -0
  9. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload_cli.egg-info/requires.txt +2 -2
  10. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload_cli.egg-info/top_level.txt +1 -0
  11. ena_upload_cli-0.7.5/requirements.txt +9 -0
  12. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/setup.py +3 -2
  13. ena_upload_cli-0.7.5/tests/__init__.py +0 -0
  14. ena_upload_cli-0.7.3/ena_upload/_version.py +0 -1
  15. ena_upload_cli-0.7.3/requirements.txt +0 -8
  16. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/LICENSE +0 -0
  17. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/MANIFEST.in +0 -0
  18. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/__init__.py +0 -0
  19. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/check_remote.py +0 -0
  20. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/__init__.py +0 -0
  21. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/characteristic.py +0 -0
  22. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/ena_experiment.py +0 -0
  23. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/ena_run.py +0 -0
  24. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/ena_sample.py +0 -0
  25. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/ena_std_lib.py +0 -0
  26. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/ena_study.py +0 -0
  27. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/ena_submission.py +0 -0
  28. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/assay_schema.json +0 -0
  29. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/comment_schema.json +0 -0
  30. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/data_schema.json +0 -0
  31. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/factor_schema.json +0 -0
  32. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/factor_value_schema.json +0 -0
  33. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/investigation_schema.json +0 -0
  34. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/material_attribute_schema.json +0 -0
  35. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/material_attribute_value_schema.json +0 -0
  36. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/material_schema.json +0 -0
  37. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/ontology_annotation_schema.json +0 -0
  38. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/ontology_source_reference_schema.json +0 -0
  39. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/organization_schema.json +0 -0
  40. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/person_schema.json +0 -0
  41. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/process_parameter_value_schema.json +0 -0
  42. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/process_schema.json +0 -0
  43. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/protocol_parameter_schema.json +0 -0
  44. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/protocol_schema.json +0 -0
  45. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/publication_schema.json +0 -0
  46. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/sample_schema.json +0 -0
  47. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/source_schema.json +0 -0
  48. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/json_schemas/study_schema.json +0 -0
  49. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/json_parsing/other_material.py +0 -0
  50. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA.project.xsd +0 -0
  51. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_FILE.xml +0 -0
  52. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_LIBRARY_SELECTION.xml +0 -0
  53. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_LIBRARY_SOURCE.xml +0 -0
  54. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_LIBRARY_STRATEGY.xml +0 -0
  55. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_PLATFORM.xml +0 -0
  56. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000011.xml +0 -0
  57. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000012.xml +0 -0
  58. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000013.xml +0 -0
  59. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000014.xml +0 -0
  60. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000015.xml +0 -0
  61. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000016.xml +0 -0
  62. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000017.xml +0 -0
  63. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000018.xml +0 -0
  64. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000019.xml +0 -0
  65. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000020.xml +0 -0
  66. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000021.xml +0 -0
  67. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000022.xml +0 -0
  68. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000023.xml +0 -0
  69. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000024.xml +0 -0
  70. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000025.xml +0 -0
  71. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000027.xml +0 -0
  72. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000028.xml +0 -0
  73. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000029.xml +0 -0
  74. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000030.xml +0 -0
  75. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000031.xml +0 -0
  76. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000032.xml +0 -0
  77. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000033.xml +0 -0
  78. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000034.xml +0 -0
  79. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000035.xml +0 -0
  80. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000036.xml +0 -0
  81. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000037.xml +0 -0
  82. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000038.xml +0 -0
  83. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000039.xml +0 -0
  84. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000040.xml +0 -0
  85. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000041.xml +0 -0
  86. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000043.xml +0 -0
  87. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000044.xml +0 -0
  88. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000045.xml +0 -0
  89. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000047.xml +0 -0
  90. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000048.xml +0 -0
  91. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000049.xml +0 -0
  92. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000050.xml +0 -0
  93. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000051.xml +0 -0
  94. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000052.xml +0 -0
  95. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000053.xml +0 -0
  96. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000055.xml +0 -0
  97. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000056.xml +0 -0
  98. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000057.xml +0 -0
  99. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_samples_ERC000058.xml +0 -0
  100. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_studies.xml +0 -0
  101. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/ENA_template_submission.xml +0 -0
  102. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/SRA.common.xsd +0 -0
  103. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/SRA.experiment.xsd +0 -0
  104. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/SRA.run.xsd +0 -0
  105. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/SRA.sample.xsd +0 -0
  106. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/SRA.study.xsd +0 -0
  107. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload/templates/SRA.submission.xsd +0 -0
  108. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload_cli.egg-info/dependency_links.txt +0 -0
  109. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/ena_upload_cli.egg-info/entry_points.txt +0 -0
  110. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/setup.cfg +0 -0
  111. {ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/tests/test_ena_objects.py +0 -0
{ena_upload_cli-0.7.3/ena_upload_cli.egg-info → ena_upload_cli-0.7.5}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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- Metadata-Version: 2.1
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+ Metadata-Version: 2.2
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  Name: ena-upload-cli
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- Version: 0.7.3
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+ Version: 0.7.5
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  Summary: Command Line Interface to upload data to the European Nucleotide Archive
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  Home-page: https://github.com/usegalaxy-eu/ena-upload-cli
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  Author: Dilmurat Yusuf
@@ -8,17 +8,28 @@ Author-email: bjoern.gruening@gmail.com
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  License: MIT
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  Keywords: pip,ena-upload-cli,cli,ENA,upload
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  Classifier: Operating System :: OS Independent
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- Requires-Python: >=3.7
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+ Requires-Python: >=3.8
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  Description-Content-Type: text/markdown
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  License-File: LICENSE
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  Requires-Dist: genshi==0.7.*
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- Requires-Dist: lxml<=5.0.0,>=4.9.3
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+ Requires-Dist: lxml==5.3.0
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  Requires-Dist: pandas<=3.0.0,>=2.0.3
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- Requires-Dist: pyyaml==5.*
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+ Requires-Dist: pyyaml==6.0.*
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  Requires-Dist: requests<=3.0.0,>=2.31.0
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  Requires-Dist: openpyxl<=4.0.0,>=3.1.2
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  Requires-Dist: jsonschema>=4.19.1
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  Requires-Dist: pytest==7.4.*
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+ Dynamic: author
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+ Dynamic: author-email
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+ Dynamic: classifier
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+ Dynamic: description
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+ Dynamic: description-content-type
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+ Dynamic: home-page
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+ Dynamic: keywords
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+ Dynamic: license
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+ Dynamic: requires-dist
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+ Dynamic: requires-python
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+ Dynamic: summary
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  [![Python application](https://github.com/usegalaxy-eu/ena-upload-cli/workflows/Python%20application/badge.svg)](https://github.com/usegalaxy-eu/ena-upload-cli/actions?query=workflow%3A%22Python+application%22)
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  [![BioConda version](https://anaconda.org/bioconda/ena-upload-cli/badges/version.svg)](https://anaconda.org/bioconda/ena-upload-cli)
@@ -51,7 +62,7 @@ After a successful submission, new tsv tables will be generated with the ENA acc
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  ## Tool dependencies
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- * python 3.7+ including following packages:
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+ * python 3.8+ including following packages:
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  * Genshi
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  * lxml
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  * pandas
{ena_upload_cli-0.7.3 → ena_upload_cli-0.7.5}/README.md RENAMED
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  ## Tool dependencies
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- * python 3.7+ including following packages:
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+ * python 3.8+ including following packages:
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  * Genshi
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  * lxml
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  * pandas
ena_upload_cli-0.7.5/ena_upload/_version.py ADDED
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+ __version__ = "0.7.5"