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RAHenriksen

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Commits on Dec 20, 2024

• update species for running pipeline

  RAHenriksen

  committed
  db63ec5

Commits on Dec 19, 2024

• updated species

  RAHenriksen

  committed
  ec8d3c3

• changed custom install for db

  RAHenriksen

  committed
  13b5e89

• adding custom install to update amr database

  RAHenriksen

  committed
  276c317

• updated files for pipeline

  RAHenriksen

  committed
  830a0eb

Commits on Dec 16, 2024

• pipeline

  RAHenriksen

  committed
  5dd72a1

• computerome changes

  RAHenriksen

  committed
  dc437eb

Commits on Dec 10, 2024

• updated pipelien and datadump for mutation and amr report

  RAHenriksen

  committed
  922ec89

Commits on Nov 21, 2024

• Merge pull request #1 from ssi-dk/amr_dev

  Show description for d4e5e78
  RAHenriksen

  authored
  d4e5e78

• update repo name part of conda name within docker environment

  RAHenriksen

  committed
  dc0229b

• added conda environment name in docker to github environment

  RAHenriksen

  committed
  a1bb039

• install essentials

  RAHenriksen

  committed
  a33435e

• added docker run

  RAHenriksen

  committed
  643ec7d

• added docker image build

  RAHenriksen

  committed
  84f9e1e

• minimized workflow to see run error for indentation

  RAHenriksen

  committed
  04a3eae

• dockerfile and conda environment for workflow

  RAHenriksen

  committed
  0df9c2e

• update

  RAHenriksen

  committed
  4608bd6

• change dockerfile

  RAHenriksen

  committed
  e0ce24b

• make test in docker

  RAHenriksen

  committed
  2731fcb

• added md5sum test to ensure amrfinder output

  RAHenriksen

  committed
  253fd41

Commits on Nov 11, 2024

• unique output names to not overwrite for run_amrfinderplus_on_reads rule

  RAHenriksen

  committed
  14c3d82

• adding assembly of subset test data from https://github.com/ssi-dk/ecoli_fbi/tree/main/test

  RAHenriksen

  committed
  e416eed

• altered launching of pipeline in relation to datadump

  RAHenriksen

  committed
  8979934

Commits on Nov 7, 2024

• making safer launcher of pipeline in terms of popen and shell of snakemake

  RAHenriksen

  committed
  38c19f1

• clean up after change in installation

  RAHenriksen

  committed
  d39ebf3

• conda environment works with bash install -i local similar to other bifrost components and accomodates computerome

  RAHenriksen

  committed
  9f4d24f

• making conda environment installation similar to other bifrost components

  RAHenriksen

  committed
  77214f5