dayhoff-tools 1.0.20__tar.gz → 1.0.22__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 (30) hide show
  1. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/PKG-INFO +1 -1
  2. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/cli/utility_commands.py +14 -10
  3. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/pyproject.toml +1 -1
  4. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/README.md +0 -0
  5. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/__init__.py +0 -0
  6. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/chemistry/standardizer.py +0 -0
  7. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/chemistry/utils.py +0 -0
  8. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/cli/__init__.py +0 -0
  9. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/cli/cloud_commands.py +0 -0
  10. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/cli/main.py +0 -0
  11. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/cli/swarm_commands.py +0 -0
  12. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/deployment/base.py +0 -0
  13. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/deployment/deploy_aws.py +0 -0
  14. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/deployment/deploy_gcp.py +0 -0
  15. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/deployment/deploy_utils.py +0 -0
  16. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/deployment/job_runner.py +0 -0
  17. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/deployment/processors.py +0 -0
  18. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/deployment/swarm.py +0 -0
  19. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/embedders.py +0 -0
  20. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/fasta.py +0 -0
  21. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/file_ops.py +0 -0
  22. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/gcp.py +0 -0
  23. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/h5.py +0 -0
  24. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/kegg.py +0 -0
  25. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/logs.py +0 -0
  26. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/mmseqs.py +0 -0
  27. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/sqlite.py +0 -0
  28. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/structure.py +0 -0
  29. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/uniprot.py +0 -0
  30. {dayhoff_tools-1.0.20 → dayhoff_tools-1.0.22}/dayhoff_tools/warehouse.py +0 -0
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.3
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  Name: dayhoff-tools
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- Version: 1.0.20
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+ Version: 1.0.22
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  Summary: Common tools for all the repos at Dayhoff Labs
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  Author: Daniel Martin-Alarcon
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  Author-email: dma@dayhofflabs.com
@@ -419,26 +419,30 @@ def update_dayhoff_tools():
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  print(f"Updating {pyproject_path} version constraint...")
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  try:
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  content = pyproject_path.read_text()
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- # Adjusted Regex: Capture quoted package name (group 1),
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- # match operators, then match non-quote/comma chars for version.
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+ # Regex: Find the line with "dayhoff-tools" dependency,
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+ # capture leading space/quote (1), package name, optional specifier, closing quote/rest (2).
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  pattern = re.compile(
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- # Capture group 1: Start, whitespace, quote, pkg name + optional extra, quote, whitespace
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- r"(^\\s*[\'\"](dayhoff-tools(?:\\\[[^\\\]]+\\])?)[\'\"]\\s*)" +
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- # Match version specifiers: operators followed by non-quote/comma chars
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- r"[><=~^]*[^\'\",]*",
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+ "^(\\s*['\\\"])dayhoff-tools(?:[><=~^][^'\\\"\\[,]*)?(['\\\"].*)$",
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  re.MULTILINE,
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  )
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- new_constraint = f">= {locked_version}"
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+ # Note: This pattern intentionally avoids matching extras like [full]
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+ # because the specifier part `[^'\"\[,]` excludes '['.
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+
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+ package_name = "dayhoff-tools"
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+ new_constraint_text = f">={locked_version}"
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+
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+ # Replace the matched line using captured groups:
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+ # group 1 (leading space/quote) + package name + new constraint + group 2 (closing quote/rest)
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+ replacement_string = f"\\g<1>{package_name}{new_constraint_text}\\g<2>"
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  new_content, num_replacements = pattern.subn(
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- # Replace the whole match with group 1 + new constraint
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- rf"\\1{new_constraint}",
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+ replacement_string,
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  content,
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  )
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  if num_replacements > 0:
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  pyproject_path.write_text(new_content)
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  print(
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- f"Updated dayhoff-tools constraint in {pyproject_path} to '{new_constraint}'"
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+ f"Updated dayhoff-tools constraint in {pyproject_path} to '{new_constraint_text}'"
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  )
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  else:
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  print(
@@ -4,7 +4,7 @@ build-backend = "poetry.core.masonry.api"
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  [project]
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  name = "dayhoff-tools"
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- version = "1.0.20"
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+ version = "1.0.22"
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  description = "Common tools for all the repos at Dayhoff Labs"
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  authors = [
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  {name = "Daniel Martin-Alarcon", email = "dma@dayhofflabs.com"}
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