nf-core/rangeland
Pipeline for remotely sensed imagery. The pipeline processes satellite imagery alongside auxiliary data in multiple steps to arrive at a set of trend files related to land-cover changes.
Define where the pipeline should find input data and save output data.
Root directory or tarball of all satellite imagery.
string
Digital elevation model.
string
Water vapor dataset.
string
Datacube definition.
string
^\S+\.prj$
Area of interest.
string
^\S+\.(gpkg|shp)$
Endmember definition.
string
^\S+\.txt$
The output directory where the results will be saved. You have to use absolute paths to storage on Cloud infrastructure.
string
Email address for completion summary.
string
^([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.
string
Definition of satellite image parameters.
Satellites for which data should be incorporated into higher level processing.
string
LND04 LND05 LND07
^((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.
string
1984-01-01
^\d{4}-\d{2}-\d{2}$
Last day of interest.
string
2006-12-31
^\d{4}-\d{2}-\d{2}$
Spatial resolution applied in analyses.
integer
30
Modify higher level processing behaviour.
Select which bands and indexes should be considered in time series analyses.
string
NDVI BLUE GREEN RED NIR SWIR1 SWIR2
((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|$))+
Should the full time series stack be returned.
boolean
Enable or disable visualizations.
Whether mosaic visualization should be returned.
boolean
true
Whether pyramid visualization should be returned.
boolean
true
Parameters that configure workflow behavior not directly related to FORCE,
Whether analysis ready data should be published to the output directory.
boolean
Whether the results of time series analyses should be published to the output directory.
boolean
Batch size of tiles considered for merging.
integer
100
Publish pipeline outputs.
boolean
true
Parameters used to describe centralised config profiles. These should not be edited.
Git commit id for Institutional configs.
string
master
Base directory for Institutional configs.
string
https://raw.githubusercontent.com/nf-core/configs/master
Institutional config name.
string
Institutional config description.
string
Institutional config contact information.
string
Institutional config URL link.
string
Less common options for the pipeline, typically set in a config file.
Display version and exit.
boolean
Method used to save pipeline results to output directory.
string
Email address for completion summary, only when pipeline fails.
string
^([a-zA-Z0-9_\-\.]+)@([a-zA-Z0-9_\-\.]+)\.([a-zA-Z]{2,5})$
Send plain-text email instead of HTML.
boolean
File size limit when attaching MultiQC reports to summary emails.
string
25.MB
^\d+(\.\d+)?\.?\s*(K|M|G|T)?B$
Do not use coloured log outputs.
boolean
Incoming hook URL for messaging service
string
Custom config file to supply to MultiQC.
string
Custom logo file to supply to MultiQC. File name must also be set in the MultiQC config file
string
Custom MultiQC yaml file containing HTML including a methods description.
string
Boolean whether to validate parameters against the schema at runtime
boolean
true
Base URL or local path to location of pipeline test dataset files
string
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.
string