fairscape-cli 1.2.2__tar.gz → 1.2.4__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 (101) hide show
  1. {fairscape_cli-1.2.2/src/fairscape_cli.egg-info → fairscape_cli-1.2.4}/PKG-INFO +1 -1
  2. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/pyproject.toml +1 -1
  3. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/commands/build_commands.py +1 -1
  4. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/commands/rocrate_commands.py +2 -2
  5. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/rocrate/section_generators.py +0 -1
  6. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/rocrate.py +1 -1
  7. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4/src/fairscape_cli.egg-info}/PKG-INFO +1 -1
  8. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/LICENSE +0 -0
  9. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/MANIFEST.in +0 -0
  10. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/README.md +0 -0
  11. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/setup.cfg +0 -0
  12. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/__init__.py +0 -0
  13. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/__main__.py +0 -0
  14. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/commands/__init__.py +0 -0
  15. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/commands/augment_commands.py +0 -0
  16. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/commands/import_commands.py +0 -0
  17. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/commands/publish_commands.py +0 -0
  18. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/commands/schema_commands.py +0 -0
  19. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/commands/track.py +0 -0
  20. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/config.py +0 -0
  21. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/data_fetcher/GenomicData.py +0 -0
  22. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/data_fetcher/PhysioNetImporter.py +0 -0
  23. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/data_fetcher/__init__.py +0 -0
  24. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/data_fetcher/bioproject_fetcher.py +0 -0
  25. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/data_fetcher/cell_line_api.py +0 -0
  26. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/data_fetcher/generic_data/__init__.py +0 -0
  27. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/data_fetcher/generic_data/connectors/__init__.py +0 -0
  28. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/data_fetcher/generic_data/connectors/dataverse_connector.py +0 -0
  29. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/data_fetcher/generic_data/connectors/figshare_connector.py +0 -0
  30. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/data_fetcher/generic_data/research_data.py +0 -0
  31. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/__init__.py +0 -0
  32. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/evidence_graph/__init__.py +0 -0
  33. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/evidence_graph/graph_builder.py +0 -0
  34. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/evidence_graph/html_builder.py +0 -0
  35. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/generate_datasheet.py +0 -0
  36. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/rocrate/__init__.py +0 -0
  37. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/rocrate/datasheet_generator.py +0 -0
  38. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/rocrate/summary_generator.py +0 -0
  39. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/rocrate/utilities/__init__.py +0 -0
  40. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/templates/.DS_Store +0 -0
  41. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/templates/base.html +0 -0
  42. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/templates/preview.html +0 -0
  43. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/templates/sections/distribution.html +0 -0
  44. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/templates/sections/overview.html +0 -0
  45. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/templates/sections/subcrates.html +0 -0
  46. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/templates/sections/summary.html +0 -0
  47. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/templates/sections/use_cases.html +0 -0
  48. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/entailments/__init__.py +0 -0
  49. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/entailments/evi.xml +0 -0
  50. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/entailments/find_outputs.py +0 -0
  51. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/entailments/inverse.py +0 -0
  52. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/jupyter/__init__.py +0 -0
  53. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/jupyter/magic.py +0 -0
  54. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/MLModel.py +0 -0
  55. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/__init__.py +0 -0
  56. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/bagit.py +0 -0
  57. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/base.py +0 -0
  58. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/biochem_entity.py +0 -0
  59. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/computation.py +0 -0
  60. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/dataset.py +0 -0
  61. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/experiment.py +0 -0
  62. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/guid_utils.py +0 -0
  63. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/instrument.py +0 -0
  64. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/pep.py +0 -0
  65. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/sample.py +0 -0
  66. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/__init__.py +0 -0
  67. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/__init__.py +0 -0
  68. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/cm4ai_schemas.py +0 -0
  69. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/v0.1.0/cm4ai_schema_apms_embedding.json +0 -0
  70. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/v0.1.0/cm4ai_schema_apmsloader_ppi_edgelist.json +0 -0
  71. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/v0.1.0/cm4ai_schema_apmsloader_ppi_gene_node_attributes.json +0 -0
  72. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/v0.1.0/cm4ai_schema_coembedding.json +0 -0
  73. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/v0.1.0/cm4ai_schema_hierarchy_cx.json +0 -0
  74. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/v0.1.0/cm4ai_schema_hierarchy_ppi_cutoff.json +0 -0
  75. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/v0.1.0/cm4ai_schema_image_embedding_emd.json +0 -0
  76. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/v0.1.0/cm4ai_schema_image_embedding_labels_prob.json +0 -0
  77. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/v0.1.0/cm4ai_schema_imageloader_gene_node_attributes.json +0 -0
  78. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/v0.1.0/cm4ai_schema_imageloader_samplescopy.json +0 -0
  79. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/cm4ai_schemas/v0.1.0/cm4ai_schema_imageloader_uniquecopy.json +0 -0
  80. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/default_schemas/default.py +0 -0
  81. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/tabular.py +0 -0
  82. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/schema/utils.py +0 -0
  83. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/software.py +0 -0
  84. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/utils.py +0 -0
  85. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/publish/__init__.py +0 -0
  86. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/publish/publish_tools.py +0 -0
  87. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/tracking/__init__.py +0 -0
  88. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/tracking/config.py +0 -0
  89. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/tracking/io_capture.py +0 -0
  90. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/tracking/metadata_generator.py +0 -0
  91. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/tracking/provenance_tracker.py +0 -0
  92. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/tracking/utils.py +0 -0
  93. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/utils/build_utils.py +0 -0
  94. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/utils/huggingface_utils.py +0 -0
  95. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/utils/merkle.py +0 -0
  96. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/utils/serialization.py +0 -0
  97. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli.egg-info/SOURCES.txt +0 -0
  98. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli.egg-info/dependency_links.txt +0 -0
  99. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli.egg-info/entry_points.txt +0 -0
  100. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli.egg-info/requires.txt +0 -0
  101. {fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli.egg-info/top_level.txt +0 -0
{fairscape_cli-1.2.2/src/fairscape_cli.egg-info → fairscape_cli-1.2.4}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: fairscape-cli
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- Version: 1.2.2
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+ Version: 1.2.4
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  Summary: A utility for packaging objects and validating metadata for FAIRSCAPE
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  Author-email: Max Levinson <mal8ch@virginia.edu>, Justin Niestroy <jniestroy@gmail.com>, Sadnan Al Manir <sadnanalmanir@gmail.com>, Tim Clark <twc8q@virginia.edu>
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  License: Copyright 2023 THE RECTOR AND VISITORS OF THE UNIVERSITY OF VIRGINIA
{fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/pyproject.toml RENAMED
@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
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  [project]
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  name = "fairscape-cli"
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- version = "1.2.2"
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+ version = "1.2.4"
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  description = "A utility for packaging objects and validating metadata for FAIRSCAPE"
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  readme = "README.md"
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  requires-python = ">=3.8"
{fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/commands/build_commands.py RENAMED
@@ -277,7 +277,7 @@ def build_release(
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  # Compliance fields as direct top-level properties
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  if completeness: parent_params["completeness"] = completeness
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- if human_subject: parent_params["humanSubjects"] = human_subject
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+ if human_subject: parent_params["humanSubjectResearch"] = human_subject
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  if prohibited_uses: parent_params["prohibitedUses"] = prohibited_uses
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  if irb: parent_params["irb"] = irb
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  if irb_protocol_id: parent_params["irbProtocolId"] = irb_protocol_id
{fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/commands/rocrate_commands.py RENAMED
@@ -155,7 +155,7 @@ def init(
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  # Compliance fields as direct top-level properties
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  if completeness: params["completeness"] = completeness
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  if ethical_review: params["ethicalReview"] = ethical_review
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- if human_subject: params["humanSubjects"] = human_subject
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+ if human_subject: params["humanSubjectResearch"] = human_subject
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  if confidentiality_level: params["confidentialityLevel"] = confidentiality_level
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  if prohibited_uses: params["prohibitedUses"] = prohibited_uses
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  if irb: params["irb"] = irb
@@ -307,7 +307,7 @@ def create(
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  # Compliance fields as direct top-level properties
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  if completeness: params["completeness"] = completeness
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  if ethical_review: params["ethicalReview"] = ethical_review
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- if human_subject: params["humanSubjects"] = human_subject
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+ if human_subject: params["humanSubjectResearch"] = human_subject
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  if confidentiality_level: params["confidentialityLevel"] = confidentiality_level
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  if prohibited_uses: params["prohibitedUses"] = prohibited_uses
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  if irb: params["irb"] = irb
{fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/datasheet_builder/rocrate/section_generators.py RENAMED
@@ -73,7 +73,6 @@ class OverviewSectionGenerator(SectionGenerator):
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  'completeness': overview.completeness or "",
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  # Human subjects & governance
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- 'human_subject': overview.human_subject or "",
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  'human_subject_research': overview.human_subject_research or "No",
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  'human_subject_exemptions': overview.human_subject_exemptions or "N/A",
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  'deidentified_samples': overview.deidentified_samples or "Yes",
{fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/src/fairscape_cli/models/rocrate.py RENAMED
@@ -431,7 +431,7 @@ def LinkSubcrates(parent_crate_path: pathlib.Path) -> List[str]:
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  "citation", "usageInfo", "additionalProperty",
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  "license", "author", "version",
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  # Top-level compliance fields
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- "ethicalReview", "humanSubjects", "humanSubjectResearch",
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+ "ethicalReview", "humanSubjectResearch",
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  "humanSubjectExemption", "deidentified", "fdaRegulated",
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  "irb", "irbProtocolId", "dataGovernanceCommittee",
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  "completeness", "prohibitedUses",
{fairscape_cli-1.2.2 → fairscape_cli-1.2.4/src/fairscape_cli.egg-info}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: fairscape-cli
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- Version: 1.2.2
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+ Version: 1.2.4
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  Summary: A utility for packaging objects and validating metadata for FAIRSCAPE
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  Author-email: Max Levinson <mal8ch@virginia.edu>, Justin Niestroy <jniestroy@gmail.com>, Sadnan Al Manir <sadnanalmanir@gmail.com>, Tim Clark <twc8q@virginia.edu>
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  License: Copyright 2023 THE RECTOR AND VISITORS OF THE UNIVERSITY OF VIRGINIA
{fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/LICENSE RENAMED
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{fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/MANIFEST.in RENAMED
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{fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/README.md RENAMED
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{fairscape_cli-1.2.2 → fairscape_cli-1.2.4}/setup.cfg RENAMED
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