dayhoff-tools 1.4.5__tar.gz → 1.4.6__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 (32) hide show
  1. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/PKG-INFO +1 -1
  2. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/cli/engine_commands.py +2 -3
  3. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/pyproject.toml +1 -1
  4. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/README.md +0 -0
  5. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/__init__.py +0 -0
  6. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/chemistry/standardizer.py +0 -0
  7. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/chemistry/utils.py +0 -0
  8. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/cli/__init__.py +0 -0
  9. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/cli/cloud_commands.py +0 -0
  10. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/cli/main.py +0 -0
  11. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/cli/swarm_commands.py +0 -0
  12. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/cli/utility_commands.py +0 -0
  13. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/deployment/base.py +0 -0
  14. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/deployment/deploy_aws.py +0 -0
  15. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/deployment/deploy_gcp.py +0 -0
  16. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/deployment/deploy_utils.py +0 -0
  17. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/deployment/job_runner.py +0 -0
  18. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/deployment/processors.py +0 -0
  19. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/deployment/swarm.py +0 -0
  20. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/embedders.py +0 -0
  21. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/fasta.py +0 -0
  22. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/file_ops.py +0 -0
  23. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/h5.py +0 -0
  24. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/intake/gcp.py +0 -0
  25. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/intake/gtdb.py +0 -0
  26. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/intake/kegg.py +0 -0
  27. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/intake/mmseqs.py +0 -0
  28. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/intake/structure.py +0 -0
  29. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/intake/uniprot.py +0 -0
  30. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/logs.py +0 -0
  31. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/sqlite.py +0 -0
  32. {dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/warehouse.py +0 -0
{dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.3
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  Name: dayhoff-tools
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- Version: 1.4.5
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+ Version: 1.4.6
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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
{dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/dayhoff_tools/cli/engine_commands.py RENAMED
@@ -382,8 +382,7 @@ def update_ssh_config_entry(engine_name: str, instance_id: str, ssh_user: str):
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  Host {engine_name} {SSH_MANAGED_COMMENT}
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  HostName {instance_id}
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  User {ssh_user}
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- ProxyCommand sh -c "aws ssm start-session --target %h --document-name AWS-StartSSHSession --idle-timeout 600 --parameters 'portNumber=%p'"
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- """
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+ ProxyCommand sh -c \"AWS_SSM_IDLE_TIMEOUT=600 aws ssm start-session --target %h --document-name AWS-StartSSHSession --parameters 'portNumber=%p'\"\n"""
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  # Check if entry already exists
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  host_line = f"Host {engine_name} {SSH_MANAGED_COMMENT}"
@@ -945,7 +944,7 @@ def config_ssh(
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  f"Host {engine['name']} {SSH_MANAGED_COMMENT}",
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  f" HostName {engine['instance_id']}",
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  f" User {ssh_user}",
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- f" ProxyCommand sh -c \"aws ssm start-session --target %h --document-name AWS-StartSSHSession --idle-timeout 600 --parameters 'portNumber=%p'\"",
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+ f" ProxyCommand sh -c \"AWS_SSM_IDLE_TIMEOUT=600 aws ssm start-session --target %h --document-name AWS-StartSSHSession --parameters 'portNumber=%p'\"",
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  ]
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  )
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{dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/pyproject.toml RENAMED
@@ -5,7 +5,7 @@ build-backend = "poetry.core.masonry.api"
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  [project]
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  name = "dayhoff-tools"
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- version = "1.4.5"
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+ version = "1.4.6"
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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"}
{dayhoff_tools-1.4.5 → dayhoff_tools-1.4.6}/README.md RENAMED
File without changes