Commit 7249ef52 authored by mancini's avatar mancini

Add interpolate step

parent a4dd6750
Pipeline #241 passed with stages
in 6 minutes and 44 seconds
#!/usr/bin/env cwl-runner
class: CommandLineTool
cwlVersion: v1.0
id: losoto_abs
doc: |
Take absolute value. Needed before smooth if amplitudes are negative!
WEIGHT: no need to be weight compliant
requirements:
InlineJavascriptRequirement:
expressionLib:
- |
function get_config() {
var par = ['soltab = ' + inputs.soltab]
if (inputs.ncpu !== null) par.push('ncpu='+inputs.ncpu);
par.push('[interpolate]')
par.push('operation = INTERPOLATE')
for(var field_name in inputs){
if(field_name === 'input_h5parm' ||
field_name === 'soltab' ||
field_name === 'ncpu') continue;
if(inputs[field_name] === null ||
inputs[field_name] === 'null') continue;
par.push(field_name+'='+inputs[field_name])
}
return par
}
InitialWorkDirRequirement:
listing:
- entryname: 'parset.config'
entry: $(get_config().join('\n'))
- entryname: $(inputs.input_h5parm.basename)
entry: $(inputs.input_h5parm)
writable: true
baseCommand: "losoto"
arguments:
- $(inputs.input_h5parm.basename)
- parset.config
hints:
DockerRequirement:
dockerPull: lofareosc/prefactor-ci:master
inputs:
- id: input_h5parm
type: File
- id: soltab
type: string
doc: "Solution table"
- id: outsoltab
type: string
doc: "Name of output soltab"
- id: axisToRegrid
type: string
doc: |
Name of the axis for which regridding/interpolation will be done
- id: newdelta
type:
- float
- string
doc: |
Fundamental width between samples after regridding.
E.g., “100kHz” or “10s”
- id: delta
type: string?
doc: |
Fundamental width between samples in axisToRegrid.
E.g., “100kHz” or “10s”. If “”, it is calculated from the axisToRegrid
values
- id: maxFlaggedWidth
type: int?
doc: |
Maximum allowable width in number of samples (after regridding) above
which interpolated values are flagged (e.g., maxFlaggedWidth = 5 would
allow gaps of 5 samples or less to be interpolated across but gaps of 6
or more would be flagged)
- id: log
type: bool
default: false
doc: |
Interpolation is done in log10 space, by default False
outputs:
- id: output_h5parm
type: File
outputBinding:
glob: $(inputs.input_h5parm.basename)
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