Code

KmerFinder to TheiaProk#188

Code

Merged

michellescribner merged 27 commits intomaintheiagen/public_health_bioinformatics:mainfrom im-kmerfindertheiagen/public_health_bioinformatics:im-kmerfinderCopy head branch name to clipboardOct 9, 2023

+185-16

Commits

Commits on Sep 11, 2023

• skeleton on kmerfinder task

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  committed
  76cf2d5

Commits on Sep 12, 2023

• remove kmerfinder_db_name

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  committed
  9762160

Commits on Sep 13, 2023

• still trying to get kmerfinder to run

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  committed
  9457c55

• is this working now?!?

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  committed
  52f173b

Commits on Sep 14, 2023

• first working version of kmerfinder task

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  committed
  9fca471

• parse top hit

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  committed
  36b43dd

• make results output file optional

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  9f18b7d

• final version of task (for now..)

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  committed
  98ba2c6

• add kmerfinder_bacteria to theiaprok!

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  committed
  d14549a

Commits on Sep 18, 2023

• fix typo

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  committed
  c55ca10

Commits on Sep 19, 2023

• pass empty file for tests - kmerfinder_db

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  committed
  c834b89

• fix input json

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  2bdc5ee

• add kmerfinder query coverage to theiaprok SE, PE, FASTA and ONT

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  committed
  9784216

• remove undeeded skip on kmerfinder (set to false by default)

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  3381183

• fix ops

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  e2dfb57

• update md5sum (part1)

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  committed
  b6dd709

• update md5sum (part2)

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  committed
  be9a3e0

• fiz sister typo

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  38fbef0

• missed a file

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  5c7b44e

• update CI

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  committed
  53d0683

Commits on Sep 22, 2023

• add kmerfinder_template_coverage to theiaprok output

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  committed
  05c2f96

Commits on Sep 25, 2023

• Merge branch 'main' into im-kmerfinder

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  authored
  7a2e74f

Commits on Sep 28, 2023

• expose database name on kmerfinder outputs

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  committed
  65ed7cf

• Merge branch 'im-kmerfinder' of https://github.com/theiagen/public_health_bioinformatics into im-kmerfinder

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  committed
  0bfda80

• Merge branch 'main' into im-kmerfinder

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  authored
  d4ec30f

• update md5sum

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  committed
  3c4bbfa

Commits on Oct 2, 2023

• fix bug - headers being outputed to datatable

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  committed
  da98fa6