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3-tuple i think#124

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MatthewRalston merged 10 commits intomasterMatthewRalston/kmerdb:masterfrom graph_algoMatthewRalston/kmerdb:graph_algoCopy head branch name to clipboardMar 28, 2024

+2,808-573

Commits

Commits on Feb 4, 2024

• Updates to README, RELEASE_NOTES officially added. '.release.sh' included. minor update to .gitignore.

  MatthewRalston

  committed
  d920bdc

Commits on Feb 20, 2024

• Changes .clean script to suitable python version and directories. Very minor comments and syntax updates to fileutil.

  MatthewRalston

  committed
  0869a34

Commits on Mar 7, 2024

• Abstracts iupac status and official warning into method validate_seqRecord_and_detect_IUPAC. Default for base shred method set to true, so warnings are enables across .fa/.fq files. Default set to …

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  MatthewRalston

  committed
  da95c75

Commits on Mar 11, 2024

• something 4 eat. changed weight_dtype to weights_dtype

  MatthewRalston

  committed
  5c44381

Commits on Mar 12, 2024

• Freak out commit. Version bump, reuqirements.txt and pyproject.toml version bumps, massive issues in __init__ graph.py kmer.py util.py. Refactor logging symmetry issues could spill over in fileutil…

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  MatthewRalston

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  768d685

Commits on Mar 18, 2024

• relexd skd duh d d thmp

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  MatthewRalston

  committed
  d0f7799

Commits on Mar 24, 2024

• Closes #127. Fixes #126. Closes #128. Updates to many files across the board, version bump to v0.7.8. In this commit, tested on Cdiff_R3.fa (in test/data), the graph subcommand produces a valid met…

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  MatthewRalston

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  ce1bd77

Commits on Mar 25, 2024

• Closes #129. Addresses the adjacency issue in multi-sequence .fa and .fq files with improved logging, logs a warning about the observed inconsistencies and note about plausible origin from .fa/.fq …

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  MatthewRalston

  committed
  443c2af

• Closes #129. Adds docstrings to several submodules. Condenses the SeqParser class into the parse submodule. wakka wakka!

  MatthewRalston

  committed
  a109718

Commits on Mar 28, 2024

• Fixes minor regression in kdb view and graph.open/KDBGReader.__init__

  MatthewRalston

  committed
  fce3a3d