Wytamma/snk

Issues

• JOSS review: Clarify intended users for `snk.yaml` in documentation

  #90 opened 3 months ago by huddlej
  2

• JOSS Review: snk.yaml schema versions

  #92 opened 3 months ago by beardymcjohnface
  2

• JOSS Review: nested config

  #91 opened 3 months ago by beardymcjohnface
  2

• JOSS review: Consider including graphviz as dependency for installation documentation

  #89 opened 3 months ago by huddlej
  1

• JOSS review: Prompt at uninstall incorrectly suggests default behavior is to confirm

  #88 opened 3 months ago by huddlej
  1

• differentiate between 'profile' and 'workflow-profile'

  #81 opened 4 months ago by cmeesters
  0

• JOSS review: Should @ktmeaton be included in the author list?

  #83 opened 4 months ago by huddlej
  3

• JOSS review: Rust-related errors when installing test environment via hatch

  #85 opened 4 months ago by huddlej
  2

• list executor special options

  #82 opened 4 months ago by cmeesters
  1

• snk does not work with the tag command

  #80 opened 4 months ago by cmeesters
  3

• Short version hashes

  #79 opened 4 months ago by Wytamma
  0

• Add snk run

  #78 opened 4 months ago by Wytamma
  0

• OSError: [Errno 39] Directory not empty: 'envs'

  #75 opened 4 months ago by Wytamma
  2

• If commit is not found workflow is still installed

  #77 opened 5 months ago by Wytamma
  0

• Remove git from snk-cli

  #73 opened 5 months ago by Wytamma
  0

• Make the distinction of the snk and snk-cli more clear

  #76 opened 5 months ago by Wytamma
  0

• Base envs

  #49 opened 8 months ago by Wytamma
  2

• Gitpython - Snk-cli conflicts while writing pyproject

  #74 opened 8 months ago by Andyargueasae
  1

• FileNotFoundError: Could not find SNK config file in workflow directory:

  #72 opened 9 months ago by Wytamma
  0

• If `version` is in the snk file then commit hash should also be printed

  #66 opened 9 months ago by Wytamma
  1

• Args should be passed to snakemake as yaml

  #40 opened 9 months ago by Wytamma
  5

• Print snake help fails on v8

  #71 opened 9 months ago by Wytamma
  0

• Dependancy injection for isolated venvs

  #69 opened 10 months ago by Wytamma
  0

• Snakemake version 8

  #53 opened 10 months ago by Wytamma
  2

• snk.yaml CLI control

  #54 opened 10 months ago by Wytamma
  1

• None should be editable on editable install

  #64 opened a year ago by Wytamma
  0

• snk-cli

  #55 opened a year ago by Wytamma
  1

• Cluster flag for snk

  #65 opened a year ago by Kobie-Kirven
  2

• move .conda to $SNK_HOME

  #38 opened 2 years ago by Wytamma
  4

• scripts folder in working dir is interpreted as scripts folder...

  #63 opened a year ago by Wytamma
  1

• Order of workflow options changes

  #62 opened a year ago by Wytamma
  0

• rerun-triggers?

  #48 opened a year ago by Wytamma
  0

• update snk list

  #60 opened a year ago by Wytamma
  0

• Monkey patched parse_config is not used in submission to the HPC

  #59 opened a year ago by Wytamma
  1

• (singularity) conda info --json' returned non-zero exit status

  #58 opened a year ago by ktmeaton
  1

• 🐛 cli arg doesn't overwrite config if arg is default

  #56 opened a year ago by Wytamma
  2

• Snakemake versioning leads to pulp dependency issue

  #57 opened a year ago by ConnorChato
  1

• add eject command

  #51 opened a year ago by Wytamma
  2

• lists are filtered out by script show

  #47 opened a year ago by Wytamma
  0

• add log flag

  #39 opened a year ago by Wytamma
  1

• ModuleNotFoundError: No module named 'rich'

  #44 opened a year ago by Wytamma
  0

• Make conda usage optional

  #45 opened a year ago by pbousquets
  1

• filter output of --dag

  #43 opened a year ago by Wytamma
  1

• Extract envs from Snakefile

  #32 opened a year ago by Wytamma
  1

• Arbitrary snakemake parameters do not work

  #42 opened 2 years ago by mmcguffi
  2

• Change working directory

  #41 opened 2 years ago by Wytamma
  1

• int not passed from cli as int

  #35 opened 2 years ago by Wytamma
  1

• --config is not overwriting the default values that are not null

  #37 opened 2 years ago by Wytamma
  1

• include extra config in the config command

  #36 opened 2 years ago by Wytamma
  0

• replace .snk with snk.yaml

  #33 opened 2 years ago by Wytamma
  1