latch_cli.docker_utils package#

Module contents#

class latch_cli.docker_utils.DockerCmdBlockOrder(value)[source]#

Bases: str, Enum

Put a command block before or after the primary COPY command.

precopy = '1'#
postcopy = '2'#
class latch_cli.docker_utils.DockerCmdBlock(comment: str, commands: List[str], order: latch_cli.docker_utils.DockerCmdBlockOrder)[source]#

Bases: object

comment: str#
commands: List[str]#
order: DockerCmdBlockOrder#
write_block(f: TextIOWrapper)[source]#
latch_cli.docker_utils.get_prologue(config: LatchWorkflowConfig, wf_type: WorkflowType = WorkflowType.latchbiosdk) List[str][source]#
latch_cli.docker_utils.get_epilogue(wf_type: WorkflowType = WorkflowType.latchbiosdk) List[str][source]#
latch_cli.docker_utils.infer_commands(pkg_root: Path) List[DockerCmdBlock][source]#
latch_cli.docker_utils.generate_dockerfile(pkg_root: Path, outfile: Path, *, wf_type: WorkflowType = WorkflowType.latchbiosdk) None[source]#

Generate a best effort Dockerfile from files in the workflow directory.

Parameters:
  • pkg_root – A path to a workflow directory.

  • outfile – The path to write the generated Dockerfile.

  • wf_type – The type of workflow (eg. snakemake) the Dockerfile is for

Example

>>> generate_dockerfile(Path("test-workflow"), Path("test-workflow/Dockerfile"))
    # The resulting file structure will look like
    #   test-workflow
    #   ├── Dockerfile
    #   └── ...
latch_cli.docker_utils.get_default_dockerfile(pkg_root: Path, *, wf_type: WorkflowType)[source]#