Define where the pipeline should find input data and save output data.

Root directory or tarball of all satellite imagery.

required
type: string

Digital elevation model.

required
type: string

Water vapor dataset.

required
type: string

Datacube definition.

required
type: string
pattern: ^\S+\.prj$

Area of interest.

required
type: string
pattern: ^\S+\.(gpkg|shp)$

Endmember definition.

required
type: string
pattern: ^\S+\.txt$

The output directory where the results will be saved. You have to use absolute paths to storage on Cloud infrastructure.

required
type: string

Email address for completion summary.

type: string
pattern: ^([a-zA-Z0-9_\-\.]+)@([a-zA-Z0-9_\-\.]+)\.([a-zA-Z]{2,5})$

MultiQC report title. Printed as page header, used for filename if not otherwise specified.

type: string

Definition of satellite image parameters.

Satellites for which data should be incorporated into higher level processing.

type: string
default: LND04 LND05 LND07
pattern: ^((LND04|LND05|LND07|LND08|LND09|SEN2A|SEN2B|sen2a|sen2b|S1AIA|S1BIA|S1AID|S1BID|MOD01|MOD02|LNDLG|SEN2L|SEN2H|R-G-B|VVVHP|MODIS)(\s|$))+$

First day of interest.

type: string
default: 1984-01-01
pattern: ^\d{4}-\d{2}-\d{2}$

Last day of interest.

type: string
default: 2006-12-31
pattern: ^\d{4}-\d{2}-\d{2}$

Spatial resolution applied in analyses.

type: integer
default: 30

Modify higher level processing behaviour.

Select which bands and indexes should be considered in time series analyses.

type: string
default: NDVI BLUE GREEN RED NIR SWIR1 SWIR2
pattern: ((BLUE|GREEN|RED|NIR|SWIR1|SWIR2|RE1|RE2|RE3|BNIR|NDVI|EVI|NBR|NDTI|ARVI|SAVI|SARVI|TC-BRIGHT|TC-GREEN|TC-WET|TC-DI|NDBI|NDWI|MNDWI|NDMI|NDSI|SMA|kNDVI|NDRE1|NDRE2|CIre|NDVIre1|NDVIre2|NDVIre3|NDVIre1n|NDVIre2n|NDVIre3n|MSRre|MSRren,CCI)(\s|$))+

Should the full time series stack be returned.

type: boolean

Enable or disable visualizations.

Whether mosaic visualization should be returned.

type: boolean
default: true

Whether pyramid visualization should be returned.

type: boolean
default: true

Parameters that configure workflow behavior not directly related to FORCE,

Whether analysis ready data should be published to the output directory.

type: boolean

Whether the results of time series analyses should be published to the output directory.

type: boolean

Batch size of tiles considered for merging.

type: integer
default: 100

Publish pipeline outputs.

type: boolean
default: true

Parameters used to describe centralised config profiles. These should not be edited.

Git commit id for Institutional configs.

hidden
type: string
default: master

Base directory for Institutional configs.

hidden
type: string
default: https://raw.githubusercontent.com/nf-core/configs/master

Institutional config name.

hidden
type: string

Institutional config description.

hidden
type: string

Institutional config contact information.

hidden
type: string

Institutional config URL link.

hidden
type: string

Less common options for the pipeline, typically set in a config file.

Display version and exit.

hidden
type: boolean

Method used to save pipeline results to output directory.

hidden
type: string

Email address for completion summary, only when pipeline fails.

hidden
type: string
pattern: ^([a-zA-Z0-9_\-\.]+)@([a-zA-Z0-9_\-\.]+)\.([a-zA-Z]{2,5})$

Send plain-text email instead of HTML.

hidden
type: boolean

File size limit when attaching MultiQC reports to summary emails.

hidden
type: string
default: 25.MB
pattern: ^\d+(\.\d+)?\.?\s*(K|M|G|T)?B$

Do not use coloured log outputs.

hidden
type: boolean

Incoming hook URL for messaging service

hidden
type: string

Custom config file to supply to MultiQC.

hidden
type: string

Custom logo file to supply to MultiQC. File name must also be set in the MultiQC config file

hidden
type: string

Custom MultiQC yaml file containing HTML including a methods description.

type: string

Boolean whether to validate parameters against the schema at runtime

hidden
type: boolean
default: true

Base URL or local path to location of pipeline test dataset files

hidden
type: string
default: https://raw.githubusercontent.com/nf-core/test-datasets/

Suffix to add to the trace report filename. Default is the date and time in the format yyyy-MM-dd_HH-mm-ss.

hidden
type: string