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Commits on Oct 9, 2019

• added dir

  katholt

  authored
  fbfe2aa

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Commits on Oct 8, 2019

• turn off MLST for non-KpSC

  katholt

  committed
  a71a914

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• Fix wzi calls when locus is missing and add iuc/iro alleles to output

  rrwick

  committed
  3ec3d5f

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Commits on Oct 7, 2019

• Add seq headers to test files

  rrwick

  committed
  32017d3

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• Reference unit tests in main README

  rrwick

  committed
  d8ae81d

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• Fix the test directory README

  rrwick

  committed
  1373c86

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Commits on Sep 12, 2019

• Change species name back (last change was based on a typo)

  rrwick

  committed
  6a85eb8

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Commits on Sep 10, 2019

• Yet another species name change

  rrwick

  committed
  58fd2bc

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Commits on Sep 9, 2019

• Little fix related to africanensis -> africana rename

  rrwick

  committed
  af834f6

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Commits on Sep 5, 2019

• Fixes for unit tests

  rrwick

  committed
  9cb4666

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Commits on Sep 3, 2019

• Some updates to unit tests

  rrwick

  committed
  d5519d9

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• Add subspecies names for ST67 and ST90

  rrwick

  committed
  b4fa38b

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Commits on Aug 29, 2019

• Change species names

  rrwick

  committed
  eb5d3ba

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• Change species names

  rrwick

  committed
  c845b48

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Commits on Jul 26, 2019

• Fix bug with truncated rmpA genes

  rrwick

  committed
  59d3952

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Commits on Jul 25, 2019

• Some more tests using real genomes

  rrwick

  committed
  753ab90

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• Change assembly_Ns to ambiguous_bases

  rrwick

  committed
  b512888

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Commits on Jul 24, 2019

• Change Raoultella to Klebsiella (Raoultella)

  rrwick

  committed
  5a908ab

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• Exclude mutations and truncations from resistance gene counts

  rrwick

  committed
  4d5572b

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• Add Klebsiella indica to species check

  rrwick

  committed
  1f94c1c

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Commits on Jul 23, 2019

• Switch to using new truncation check logic

  rrwick

  committed
  36906aa

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• Switch to using new truncation check logic

  rrwick

  committed
  c948c77

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• Switch to using new truncation check logic

  rrwick

  committed
  c902e1b

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Commits on Jul 19, 2019

• Add assembly_Ns column

  rrwick

  committed
  09ce4b4

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• Add K. pasteurii and K. spallanzanii

  rrwick

  committed
  b70a835

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Commits on Jun 3, 2019

• Fixes and tests for exact amino acid strand problems

  rrwick

  committed
  20dcb22

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Commits on May 7, 2019

• Add tests for summary values

  rrwick

  committed
  20718ab

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• Move Omp results into a separate resistance column

  rrwick

  committed
  4d85733

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Commits on May 2, 2019

• Turn off mutation/truncation tests when not a Kp-complex species

  rrwick

  committed
  593c57f

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• Make species detection permanently on

  rrwick

  committed
  9f8b46f

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Commits on Apr 12, 2019

• Lots of fixes for resistance blastx

  rrwick

  committed
  f4e675d

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Commits on Mar 25, 2019

• Add OmpK gene checks

  rrwick

  committed
  ac2addd

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Commits on Mar 22, 2019

• Check for exact amino acid match

  rrwick

  committed
  2e9505d

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Commits on Mar 21, 2019

• Add some tests for planned amino acid matching

  rrwick

  committed
  86c0dd0

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Commits on Mar 20, 2019

• Improve makeblastdb logic

  rrwick

  committed
  814efd1

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