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Overview

Installation
Quickstart
User guide
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Reference

Command-line interface
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Python API
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- nipoppy
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  - nipoppy.base
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    - nipoppy.base.Base
  - nipoppy.config
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    - nipoppy.config.boutiques
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      - nipoppy.config.boutiques.BoutiquesConfig
    - nipoppy.config.container
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      - nipoppy.config.container.ContainerConfig
      - nipoppy.config.container.ContainerInfo
    - nipoppy.config.main
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      - nipoppy.config.main.Config
    - nipoppy.config.pipeline
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    - nipoppy.config.pipeline_step
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    - nipoppy.config.tracker
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      - nipoppy.config.tracker.TrackerConfig
    - nipoppy.config.BasePipelineConfig
    - nipoppy.config.BasePipelineStepConfig
    - nipoppy.config.BidsPipelineConfig
    - nipoppy.config.BidsPipelineStepConfig
    - nipoppy.config.BoutiquesConfig
    - nipoppy.config.Config
    - nipoppy.config.ContainerConfig
    - nipoppy.config.ProcPipelineConfig
    - nipoppy.config.ProcPipelineStepConfig
    - nipoppy.config.TrackerConfig
  - nipoppy.env
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    - nipoppy.env.LogColor
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  - nipoppy.layout
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  - nipoppy.logger
  - nipoppy.tabular
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    - nipoppy.tabular.bagel
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      - nipoppy.tabular.bagel.Bagel
      - nipoppy.tabular.bagel.BagelModel
    - nipoppy.tabular.base
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      - nipoppy.tabular.base.BaseTabular
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    - nipoppy.tabular.dicom_dir_map
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      - nipoppy.tabular.dicom_dir_map.DicomDirMap
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    - nipoppy.tabular.doughnut
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      - nipoppy.tabular.doughnut.Doughnut
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    - nipoppy.tabular.manifest
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      - nipoppy.tabular.manifest.Manifest
      - nipoppy.tabular.manifest.ManifestModel
    - nipoppy.tabular.Bagel
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    - nipoppy.tabular.Manifest
  - nipoppy.utils
  - nipoppy.workflows
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    - nipoppy.workflows.base
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      - nipoppy.workflows.base.BaseWorkflow
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      - nipoppy.workflows.bids_conversion.BidsConversionRunner
    - nipoppy.workflows.dataset_init
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      - nipoppy.workflows.dataset_init.InitWorkflow
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      - nipoppy.workflows.dicom_reorg.DicomReorgWorkflow
    - nipoppy.workflows.doughnut
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    - nipoppy.workflows.PipelineTracker
File schemas

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What’s new
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Glossary

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nipoppy.config.main¶

Dataset configuration.

Classes¶

Schema for dataset configuration.

nipoppy.config.main.Config

nipoppy.config.container.ContainerInfo

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nipoppy.config.main
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