@prefix CommandLineBinding: . @prefix xsd: . @prefix DockerRequirement: . @prefix Workflow: . @prefix InlineJavascriptRequirement: . @prefix sld: . @prefix rdfs: . @prefix CommandOutputBinding: . @prefix ns1: . @prefix InplaceUpdateRequirement: . @prefix rdf: . @prefix Dirent: . @prefix cwl: . @prefix ResourceRequirement: . cwl:linkMerge "merge_flattened" ; cwl:outputSource , , , , , , , , , , ; cwl:pickValue "all_non_null" ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . sld:default true . rdfs:label "losoto_plot_tec2" ; cwl:in , , , , , , , , ; cwl:out , , ; cwl:run ; cwl:when "$(inputs.execute)" . sld:default true . rdfs:comment "If true performs smoothing" ; cwl:inputBinding [ CommandLineBinding:prefix "-S" ; CommandLineBinding:separate true ; cwl:valueFrom "$(self ? 'True': 'False')" ] ; cwl:inputBinding [ CommandLineBinding:prefix "-S" ; CommandLineBinding:separate true ; cwl:valueFrom "$(self ? 'True': 'False')" ] ; cwl:inputBinding [ CommandLineBinding:prefix "-S" ; CommandLineBinding:separate true ; cwl:valueFrom "$(self ? 'True': 'False')" ] ; sld:default true ; sld:type xsd:boolean , sld:null . sld:type xsd:string . rdfs:label "H5parm_collector_amp" ; cwl:in , , , , ; cwl:out , ; cwl:run ; cwl:when "$(inputs.execute)" . rdfs:label "concat_logfiles_apply_targ" ; cwl:in , ; cwl:out ; cwl:run . sld:default 120 . sld:type [ sld:items cwl:Directory ; sld:type sld:array ] . sld:default "time" , "freq" . sld:default true . sld:default true . cwl:outputSource ; cwl:pickValue "all_non_null" ; sld:type cwl:File . sld:default "calib_targ_amp" . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . cwl:inputBinding [ CommandLineBinding:prefix "msout.storagemanager=" ] ; cwl:inputBinding [ CommandLineBinding:prefix "msout.storagemanager=" ] ; cwl:inputBinding [ CommandLineBinding:prefix "msout.storagemanager=" ] ; sld:default "" ; sld:type xsd:string . sld:default "Dysco" . sld:default "time" . cwl:pickValue "all_non_null" ; cwl:source . cwl:source ; cwl:valueFrom "$([self])" . sld:default "time" . rdfs:comment "Output table name. By default choose next available from table type." ; sld:type xsd:string , sld:null . sld:default "CORRECTED_DATA" . cwl:source ; cwl:valueFrom "$(\"BLsmooth_model\"+self)" . rdfs:comment "Maximum number of iterations during approximating stage" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.maxapproxiter=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.maxapproxiter=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.maxapproxiter=" ; CommandLineBinding:separate false ] ; sld:type xsd:int , sld:null . sld:default true . rdfs:comment "Choose correlation to be plotted (XX,YY,XY,YX)\n" ; sld:type xsd:string , sld:null . cwl:linkMerge "merge_flattened" ; cwl:source . rdfs:label "write_solutions1" ; cwl:in , , , , , , ; cwl:out , ; cwl:run . rdfs:label "apply_targ2" ; cwl:in , , , , , , , , ; cwl:out , ; cwl:run ; cwl:when "$(inputs.execute)" . rdfs:comment "Use Log=’XYZ’ to set which axes to put in Log.\n" ; sld:type xsd:string , sld:null . rdfs:comment "List of h5parm files" ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; sld:type cwl:File . cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.h5parm.basename)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.h5parm.basename)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.h5parm.basename)" ] ; sld:type cwl:File . sld:type xsd:boolean , sld:null . sld:default "tec000" . rdfs:label "concat_logfiles_calib_targ_amp" ; cwl:in , , ; cwl:out ; cwl:run ; cwl:when "$(inputs.execute)" . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . rdfs:comment "Filter these antenna string from the processing" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--filter" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--filter" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--filter" ] ; sld:default "[CR]S*&" ; sld:type xsd:string , sld:null . rdfs:comment "Filename of output H5Parm (to be read by e.g. losoto)" ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.output_name_h5parm)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.output_name_h5parm)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.output_name_h5parm)" ] ; sld:type cwl:File . sld:default "[CR]S*&" ; sld:type xsd:string , sld:null . cwl:source . cwl:source . sld:default 1e+03 . rdfs:comment "Do not smooth in time" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-t" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-t" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-t" ] ; sld:default false ; sld:type xsd:boolean , sld:null . cwl:source . sld:default "BLsmooth_model" . sld:type cwl:File . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . cwl:source ; cwl:valueFrom "$(self+\"amplitude\")" . rdfs:label "H5parm_collector_tec2" ; cwl:in , , , , ; cwl:out , ; cwl:run ; cwl:when "$(inputs.execute)" . rdfs:comment "Output column" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-o" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-o" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-o" ] ; sld:default "SMOOTHED_DATA" ; sld:type xsd:string , sld:null . sld:default true . cwl:source ; cwl:valueFrom "$([self])" . rdfs:comment "Keep history of the export soltabs" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-H" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-H" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-H" ] ; sld:default false ; sld:type xsd:boolean . rdfs:comment "External H5parm from which the full list of antennas is used from." ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--refh5" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--refh5" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--refh5" ] ; sld:type cwl:File . cwl:source . rdfs:comment "Number of cores" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-n" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-n" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-n" ] ; sld:default 4 ; sld:type xsd:int , sld:null . rdfs:label "concat_logfiles_apply_targ1" ; cwl:in , ; cwl:out ; cwl:run . rdfs:comment "Prefix to add before the self-generated filename.\n" ; sld:default "losoto.plot." ; sld:type xsd:string , sld:null . a cwl:CommandLineTool ; rdfs:label "h5parm_cat" ; ns1:original_cwlVersion "v1.2" ; cwl:arguments ( [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-o" ; cwl:valueFrom "$(inputs.input_file.basename)" ] ) ; cwl:arguments ( [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-o" ; cwl:valueFrom "$(inputs.input_file.basename)" ] ) ; cwl:arguments ( [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-o" ; cwl:valueFrom "$(inputs.input_file.basename)" ] ) ; cwl:baseCommand ( "H5parm_collector.py" ) ; cwl:baseCommand ( "H5parm_collector.py" ) ; cwl:baseCommand ( "H5parm_collector.py" ) ; cwl:cwlVersion cwl:v1.2 ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:inputs , , , , , , , , ; cwl:outputs , ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_file)" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_file)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_file)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:stderr "h5parm_collector_output_err.log" ; cwl:stdout "h5parm_collector_output.log" . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . sld:default "CORRECTED_DATA" . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . sld:default true . rdfs:comment "Define output file name for JSON statistics" ; cwl:inputBinding [ CommandLineBinding:prefix "count.jsonfilename=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "count.jsonfilename=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "count.jsonfilename=" ; CommandLineBinding:separate false ] ; sld:default "out.json" ; sld:type xsd:string , sld:null . cwl:source . cwl:source . rdfs:comment "Reference antenna for phases. By default None.\n" ; sld:default "" ; sld:type xsd:string , sld:null . sld:default -3.14e+00 , 3.14e+00 . rdfs:comment "Output data column" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "msout.datacolumn=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "msout.datacolumn=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "msout.datacolumn=" ; CommandLineBinding:separate false ] ; sld:type xsd:string . cwl:in , , ; cwl:out , ; cwl:run . a cwl:CommandLineTool ; rdfs:label "concatfiles" ; ns1:original_cwlVersion "v1.2" ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:baseCommand ( "bash" "bulk_rename.sh" ) ; cwl:cwlVersion cwl:v1.2 ; cwl:inputs , , ; cwl:outputs ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "#!/bin/bash\nset -e\nFILE_LIST=(\"\\${@}\")\nFILE_PREFIX=$(inputs.file_prefix)\nFILE_SUFFIX=$(inputs.file_suffix === null ? '' : inputs.file_suffix)\ncat \"\\${FILE_LIST[@]}\" > $FILE_PREFIX.$FILE_SUFFIX\n" ; cwl:entryname "bulk_rename.sh" ] ] . cwl:in , , , , ; cwl:out , ; cwl:run . sld:default -5e-01 , 5e-01 . rdfs:comment "Split the I/O in n chunks. If you run out of memory, set this to a value > 2." ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-c" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-c" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-c" ] ; sld:default 8 ; sld:type xsd:int , sld:null . rdfs:label "concat_logfiles_calib_targ1" ; cwl:in , ; cwl:out ; cwl:run . sld:default "CORRECTED_DATA" . cwl:linkMerge "merge_flattened" ; cwl:outputSource , , ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . sld:default "CORRECTED_DATA" . cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)" ] ; sld:type cwl:File . cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.prefix)*.png" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.prefix)*.png" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.prefix)*.png" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.prefix)*.png" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.prefix)*.png" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.prefix)*.png" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.prefix)*.png" ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . cwl:source . sld:default 2e-01 . a cwl:CommandLineTool ; rdfs:label "BLsmooth" ; ns1:original_cwlVersion "v1.2" ; cwl:baseCommand ( "BLsmooth.py" ) ; cwl:baseCommand ( "BLsmooth.py" ) ; cwl:baseCommand ( "BLsmooth.py" ) ; cwl:cwlVersion cwl:v1.2 ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:inputs , , , , , , , , , , , , , ; cwl:outputs , ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.msin)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.msin)" ] ] ; cwl:requirements [ a cwl:InplaceUpdateRequirement ; InplaceUpdateRequirement:inplaceUpdate true ] ; cwl:requirements [ a cwl:InplaceUpdateRequirement ; InplaceUpdateRequirement:inplaceUpdate true ] ; cwl:requirements [ a cwl:InplaceUpdateRequirement ; InplaceUpdateRequirement:inplaceUpdate true ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.msin)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:stderr "BLsmooth.log" . cwl:pickValue "all_non_null" ; cwl:source . sld:default true . cwl:source . sld:default "amplitudeSmooth" . sld:default 1e-03 . cwl:source ; cwl:valueFrom "$(self+\"amplitude\")" . sld:default "ph_" . rdfs:comment "Number to normalize to vals = vals * (normVal/valsMean), by default 1." ; sld:type xsd:float , sld:null . rdfs:comment "Output Measurement Set" ; cwl:outputBinding [ CommandOutputBinding:outputEval "$(inputs.msin)" ] ; cwl:outputBinding [ CommandOutputBinding:outputEval "$(inputs.msin)" ] ; cwl:outputBinding [ CommandOutputBinding:outputEval "$(inputs.msin)" ] ; sld:type cwl:Directory . rdfs:comment "Save the newly computed WEIGHT_SPECTRUM, this action permanently modify the MS!" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-w" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-w" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-w" ] ; sld:default false ; sld:type xsd:boolean , sld:null . sld:default true . cwl:pickValue "all_non_null" ; cwl:source . cwl:source . cwl:source . sld:type xsd:boolean , sld:null . sld:default "ant" . sld:type cwl:File . rdfs:label "concat_logfiles_BLsmooth_model" ; cwl:in , ; cwl:out ; cwl:run . rdfs:label "add_missing_stations_amp" ; cwl:in , , , , , , , , ; cwl:out , ; cwl:run ; cwl:when "$(inputs.execute)" . rdfs:comment "Tabs to plot" ; sld:type xsd:string . rdfs:comment "Number of cpus, by default all available." ; sld:type xsd:int , sld:null . sld:default true . cwl:source . cwl:source . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . rdfs:label "apply_targ" ; cwl:in , , , , , , , , ; cwl:out , ; cwl:run . cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.file_prefix).$(inputs.file_suffix)" ] ; sld:type cwl:File . rdfs:comment "Tolerance at which the approximating first stage is considered to be converged and the second full-constraining stage is started." ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.approxtolerance=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.approxtolerance=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.approxtolerance=" ; CommandLineBinding:separate false ] ; sld:type xsd:float , sld:null . sld:type cwl:File . sld:default "MODEL_DATA" . cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.sourcedb=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.sourcedb=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.sourcedb=" ; CommandLineBinding:separate false ] ; sld:type cwl:Directory , cwl:File , sld:null . sld:type xsd:string , sld:null . rdfs:comment "Output solset name" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insoltab" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insoltab" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insoltab" ] ; sld:type xsd:string , sld:null . sld:default "time" , "ant" , "freq" . rdfs:comment "An optional reference frequency (in Hz) for the smoothness constraint" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.smoothnessreffrequency=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.smoothnessreffrequency=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.smoothnessreffrequency=" ; CommandLineBinding:separate false ] ; sld:default 0e+00 ; sld:type xsd:float , sld:null . cwl:source . rdfs:comment "MS set output" ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.msin.basename)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.msin.basename)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.msin.basename)" ] ; sld:type cwl:Directory . cwl:source . cwl:source , , ; cwl:valueFrom "$(self.join(''))" . rdfs:comment "List of directions to calibrate on" ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.directions=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.directions=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.directions=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.beammode=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.beammode=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.beammode=" ; CommandLineBinding:separate false ] ; sld:type xsd:string , sld:null . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . rdfs:comment "Solution table" ; sld:type xsd:string . cwl:source . cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)" ] ; sld:type cwl:File . cwl:source . sld:default "target" . cwl:outputSource , ; cwl:pickValue "first_non_null" ; sld:type cwl:Directory . rdfs:label "losoto_plot_tec1" ; cwl:in , , , , , , , ; cwl:out , , ; cwl:run . sld:default "sol000/amplitudeSmooth" . sld:default "calib_targ_slowtec" . rdfs:comment "Type of correction to perform. When using H5Parm, this is for now the name of the soltab; the type will be deduced from the metadata in that soltab, except for full Jones, in which case correction should be 'fulljones'.\n" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.correction=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.correction=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.correction=" ; CommandLineBinding:separate false ] ; sld:default "gain" ; sld:type xsd:string . a cwl:CommandLineTool ; rdfs:label "H5parm_collector" ; ns1:original_cwlVersion "v1.2" ; cwl:baseCommand ( "H5parm_collector.py" ) ; cwl:baseCommand ( "H5parm_collector.py" ) ; cwl:baseCommand ( "H5parm_collector.py" ) ; cwl:cwlVersion cwl:v1.2 ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:inputs , , , , , , , ; cwl:outputs , ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:stderr "$(inputs.outh5parmname)-parm_collector_output_err.log" ; cwl:stdout "$(inputs.outh5parmname)-parm_collector_output.log" . sld:default "calib_targ_fasttec" . sld:type xsd:string . rdfs:label "losoto_plot_ampSmooth" ; cwl:in , , , , , , ; cwl:out , , ; cwl:run ; cwl:when "$(inputs.execute)" . sld:default "sol000/phase000" . cwl:pickValue "all_non_null" ; cwl:source ; cwl:valueFrom "$([self])" . rdfs:comment "verbose output" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-v" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-v" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-v" ] ; sld:default true ; sld:type xsd:boolean . sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . rdfs:label "losoto_plot_amp" ; cwl:in , , , , , , ; cwl:out , , ; cwl:run ; cwl:when "$(inputs.execute)" . rdfs:comment "Uses an approximation stage in which the phases are constrained with the piece-wise fitter, to solve local minima problems." ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.approximatetec=True" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.approximatetec=True" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.approximatetec=True" ] ; sld:default false ; sld:type xsd:boolean , sld:null . sld:default "target" . sld:default 250 . rdfs:label "apply_targ1" ; cwl:in , , , , , , , , ; cwl:out , ; cwl:run . sld:default "pol" . rdfs:comment "Input calibration solutions of the reference h5parm file" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--refsolset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--refsolset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--refsolset" ] ; sld:default "sol000" ; sld:type xsd:string , sld:null . sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . sld:default "sol000/amplitude000" . sld:default "Dysco" . rdfs:comment "Solution interval in timesteps" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.solint=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.solint=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.solint=" ; CommandLineBinding:separate false ] ; sld:default 1 ; sld:type xsd:int , sld:null . cwl:outputSource ; sld:type cwl:File . rdfs:label "apply_calibrate_tec" ; cwl:in , , , , , , , , , , ; cwl:out , , , , , , , , , , , ; cwl:run ; cwl:scatter ( ) . sld:default "losoto_amp" . rdfs:comment "Dictionary that contains the flagged fraction per station" ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.jsonfilename)" ; CommandOutputBinding:outputEval "$(JSON.parse(self[0].contents).flagged_fraction_dict)" ; cwl:loadContents true ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.jsonfilename)" ; CommandOutputBinding:outputEval "$(JSON.parse(self[0].contents).flagged_fraction_dict)" ; cwl:loadContents true ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.jsonfilename)" ; CommandOutputBinding:outputEval "$(JSON.parse(self[0].contents).flagged_fraction_dict)" ; cwl:loadContents true ] ; sld:type xsd:string . rdfs:label "concat_logfiles_losoto_tec2" ; cwl:in , , ; cwl:out ; cwl:run ; cwl:when "$(inputs.execute)" . cwl:outputSource ; sld:type cwl:File . rdfs:comment "Step size in time for subsequent plotting\n" ; sld:type sld:null ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] . sld:default "target" . cwl:source . cwl:source . sld:default "amplitudeSmooth" . sld:default 1e+00 . sld:default "SMOOTHED_DATA" . rdfs:comment "Output solset name" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insoltab" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insoltab" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insoltab" ] ; sld:type xsd:string , sld:null . cwl:source . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . rdfs:comment "maximum amount of threads to be used for processing" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "numthreads=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "numthreads=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "numthreads=" ; CommandLineBinding:separate false ] ; sld:type xsd:int , sld:null . sld:default true . sld:default "calib_targ_amp" . rdfs:comment "Flag unconverged solutions (i.e., those from solves that did not converge\nwithin maxiter iterations).\n" ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.flagunconverged=True" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.flagunconverged=True" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.flagunconverged=True" ] ; sld:default false ; sld:type xsd:boolean , sld:null . cwl:source , , ; cwl:valueFrom "$(self.join(''))" . sld:default "tec000" . sld:default "time" , "freq" . sld:default 0 . rdfs:label "H5parm_collector_tec1" ; cwl:in , , , ; cwl:out , ; cwl:run . sld:default 0 . cwl:outputSource ; sld:type cwl:File . rdfs:comment "removes all axes with the length of 1" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-q" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-q" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-q" ] ; sld:default false ; sld:type xsd:boolean . cwl:source . rdfs:label "concat_logfiles_apply_targ2" ; cwl:in , , ; cwl:out ; cwl:run ; cwl:when "$(inputs.execute)" . cwl:outputBinding [ CommandOutputBinding:glob "h5parm_collector_output*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "h5parm_collector_output*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "h5parm_collector_output*.log" ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . rdfs:comment "the axis to plot on a page - e.g. ant to get all antenna’s on one file.\n" ; sld:type xsd:string , sld:null . sld:default "unit" . sld:default "time" , "freq" . cwl:source . sld:type xsd:int , sld:null . sld:default "CORRECTED_DATA" . cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.invert=False" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.invert=False" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.invert=False" ; CommandLineBinding:separate false ] ; sld:type xsd:boolean , sld:null . rdfs:comment "1- or 2-element array which says the coordinates to plot (2 for 3D plots).\n" ; sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . cwl:pickValue "all_non_null" ; cwl:source . cwl:source . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . cwl:outputSource ; cwl:pickValue "all_non_null" ; sld:type cwl:File . rdfs:comment "Path of parmdb in which the parameters are stored. This can also be an H5Parm file, in that case the filename has to end in '.h5'" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.parmdb=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.parmdb=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.parmdb=" ; CommandLineBinding:separate false ] ; sld:type cwl:File . rdfs:comment "Size of the markers in the 2D plot. By default 2.\n" ; sld:default 2 ; sld:type xsd:int , sld:null . rdfs:comment "Unwrap phases." ; sld:default false ; sld:type xsd:boolean , sld:null . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . cwl:outputSource ; sld:type cwl:File . sld:default "CORRECTED_DATA" . cwl:linkMerge "merge_flattened" ; cwl:pickValue "all_non_null" ; cwl:source , , , , , , , , . rdfs:comment "overwrite output" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-c" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-c" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-c" ] ; sld:default false ; sld:type xsd:boolean . sld:default 1e+02 . rdfs:comment "Output h5parm name" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--outh5parm" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--outh5parm" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--outh5parm" ] ; sld:default "output.h5" ; sld:type xsd:string . rdfs:comment "Baselines to be selected" ; cwl:inputBinding [ CommandLineBinding:prefix "msin.baseline=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "msin.baseline=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "msin.baseline=" ; CommandLineBinding:separate false ] ; sld:type xsd:string , sld:null . sld:default 1e+02 . rdfs:comment "Optional extra data columns to read" ; cwl:inputBinding [ CommandLineBinding:prefix "msin.extradatacolumns=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:prefix "msin.extradatacolumns=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:prefix "msin.extradatacolumns=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . sld:default 8e+04 . rdfs:label "BLsmooth2" ; cwl:in , , , ; cwl:out , ; cwl:run . rdfs:comment "Whether to plot also flags as red points in 2D plots." ; sld:default false ; sld:type xsd:boolean , sld:null . rdfs:comment "Input measurement set" ; cwl:inputBinding [ CommandLineBinding:position 1 ] ; cwl:inputBinding [ CommandLineBinding:position 1 ] ; cwl:inputBinding [ CommandLineBinding:position 1 ] ; sld:type cwl:Directory . sld:default "time" . rdfs:comment "verbose output" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-v" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-v" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-v" ] ; sld:default true ; sld:type xsd:boolean . rdfs:label "losoto_plot_phase2" ; cwl:in , , , , , , , , , ; cwl:out , , ; cwl:run ; cwl:when "$(inputs.execute)" . rdfs:label "BLsmooth_model" ; cwl:in , , , , ; cwl:out , ; cwl:run . cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.usechannelfreq=False" ; CommandLineBinding:separate false ; cwl:valueFrom "$(!self)" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.usechannelfreq=False" ; CommandLineBinding:separate false ; cwl:valueFrom "$(!self)" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.usechannelfreq=False" ; CommandLineBinding:separate false ; cwl:valueFrom "$(!self)" ] ; sld:default true ; sld:type xsd:boolean , sld:null . sld:default "MODEL_DATA" . sld:default "ant" . sld:default "MODEL_DATA" . rdfs:comment "Ignore baselines / channels with UV < uvlambdamin wavelengths." ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.uvlambdamin=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.uvlambdamin=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.uvlambdamin=" ; CommandLineBinding:separate false ] ; sld:default 3e+02 ; sld:type xsd:float , sld:null . cwl:outputSource ; sld:type [ sld:items cwl:Directory ; sld:type sld:array ] . sld:default "sol000" . rdfs:comment "A list of lists specifying groups of antennas that are to be constrained to have the same solution." ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.antennaconstraint=" ; CommandLineBinding:separate false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.antennaconstraint=" ; CommandLineBinding:separate false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.antennaconstraint=" ; CommandLineBinding:separate false ; cwl:valueFrom "[$(self.join(','))]" ] ; sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . sld:default "ph_" . a cwl:CommandLineTool ; ns1:original_cwlVersion "v1.2" ; cwl:arguments ( "steps=[applycal, count]" "msout=." ) ; cwl:arguments ( "steps=[applycal, count]" "msout=." ) ; cwl:arguments ( "steps=[applycal, count]" "msout=." ) ; cwl:baseCommand ( "DP3" ) ; cwl:baseCommand ( "DP3" ) ; cwl:baseCommand ( "DP3" ) ; cwl:cwlVersion cwl:v1.2 ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:inputs , , , , , , , , , , , ; cwl:outputs , ; cwl:requirements [ a cwl:InplaceUpdateRequirement ; InplaceUpdateRequirement:inplaceUpdate true ] ; cwl:requirements [ a cwl:ResourceRequirement ; ResourceRequirement:coresMin "$(inputs.max_dp3_threads)" ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InplaceUpdateRequirement ; InplaceUpdateRequirement:inplaceUpdate true ] ; cwl:requirements [ a cwl:ResourceRequirement ; ResourceRequirement:coresMin "$(inputs.max_dp3_threads)" ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.msin)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:ResourceRequirement ; ResourceRequirement:coresMin "$(inputs.max_dp3_threads)" ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.msin)" ] ] ; cwl:requirements [ a cwl:InplaceUpdateRequirement ; InplaceUpdateRequirement:inplaceUpdate true ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.msin)" ] ] ; cwl:stderr "applycal_$(inputs.correction)_err.log" ; cwl:stdout "applycal_$(inputs.correction).log" . sld:default 4 . cwl:source . sld:type xsd:boolean , sld:null . sld:default -5e-01 , 5e-01 . rdfs:comment "Axes along which compute the normalization" ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . cwl:source , ; cwl:valueFrom "$(self.join('')+\"_\")" . sld:default -1e+00 , 1e+00 . sld:default true . cwl:linkMerge "merge_flattened" ; cwl:pickValue "all_non_null" ; cwl:source , , , . cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)-losoto*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)-losoto*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)-losoto*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)-losoto*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)-losoto*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)-losoto*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)-losoto*.log" ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . rdfs:comment "When unequal to 0, all stations within the given distance from the reference station (0) will be constrained to have the same solution (in metres)" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.coreconstraint=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.coreconstraint=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.coreconstraint=" ; CommandLineBinding:separate false ] ; sld:default 0e+00 ; sld:type xsd:float , sld:null . sld:default 1 . cwl:source . cwl:source . rdfs:label "concat_logfiles_BLsmooth" ; cwl:in , ; cwl:out ; cwl:run . cwl:source . cwl:source . cwl:source . sld:default true . sld:default "amp_" . sld:default "ant" . sld:default "tec" ; sld:type xsd:string , sld:null . cwl:linkMerge "merge_flattened" ; cwl:outputSource , , , , , , ; cwl:pickValue "all_non_null" ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . cwl:source ; cwl:valueFrom "$(\"calib_targ_slowtec\"+self)" . cwl:source ; cwl:valueFrom "$(\"calib_targ_fasttec\"+self)" . rdfs:comment "Output solset name" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--outsolset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--outsolset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--outsolset" ] ; sld:default "sol000" ; sld:type xsd:string , sld:null . sld:default 3e+06 . cwl:linkMerge "merge_flattened" ; cwl:source , , , . cwl:linkMerge "merge_flattened" ; cwl:pickValue "all_non_null" ; cwl:source . rdfs:comment "Propagate solutions of the previous time slot only if the solve converged" ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.propagateconvergedonly=True" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.propagateconvergedonly=True" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.propagateconvergedonly=True" ] ; sld:default true ; sld:type xsd:boolean , sld:null . sld:default 1e-03 . sld:type cwl:File . cwl:outputBinding [ CommandOutputBinding:glob "applycal_$(inputs.correction)*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "applycal_$(inputs.correction)*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "applycal_$(inputs.correction)*.log" ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . a cwl:Workflow ; rdfs:label "losoto_amplitude" ; ns1:original_cwlVersion "v1.2" ; Workflow:steps , , ; cwl:cwlVersion cwl:v1.2 ; cwl:inputs ; cwl:outputs , . sld:default "sol000/phase000" . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . sld:default "sol000/tec000" . cwl:source . rdfs:comment "Axis along which replicate the values." ; sld:type xsd:string . rdfs:label "concat_logfiles_losoto_tec1" ; cwl:in , ; cwl:out ; cwl:run . cwl:source . rdfs:comment "Column name to smooth" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-i" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-i" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-i" ] ; sld:default "DATA" ; sld:type xsd:string , sld:null . cwl:source . cwl:source . sld:type cwl:File . a cwl:Workflow ; rdfs:label "TEC'n'amp" ; ns1:original_cwlVersion "v1.2" ; Workflow:steps , , , , , , , , , , , , , , , , , , , , , , , , , , , , ; cwl:cwlVersion cwl:v1.2 ; cwl:inputs , , , , , , , , , , , , , , , ; cwl:outputs , , , , ; cwl:requirements [ a cwl:SubworkflowFeatureRequirement ] ; cwl:requirements [ a cwl:ScatterFeatureRequirement ] . rdfs:comment "Output Measurement Set" ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.msin.basename)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.msin.basename)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.msin.basename)" ] ; sld:type cwl:Directory . rdfs:comment "overwrite output" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-c" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-c" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-c" ] ; sld:default true ; sld:type xsd:boolean . rdfs:comment "Type of constraint to apply. Options are\n" ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.mode=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.mode=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.mode=" ; CommandLineBinding:separate false ] ; sld:type [ sld:symbols , , , , , , , , , , , ; sld:type sld:enum ] ; sld:type [ sld:symbols , , , , , , , , , , , ; sld:type sld:enum ] ; sld:type [ sld:symbols , , , , , , , , , , , ; sld:type sld:enum ] . rdfs:label "losoto_amplitude" ; cwl:in , ; cwl:out , ; cwl:run ; cwl:when "$(inputs.execute)" . sld:default "ant" . cwl:source . rdfs:comment "Output h5parm name" ; sld:default "output.h5" ; sld:type cwl:File . sld:default true . rdfs:comment "Output logfile" ; cwl:outputBinding [ CommandOutputBinding:glob "ddecal*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "ddecal*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "ddecal*.log" ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . cwl:linkMerge "merge_flattened" ; cwl:source . sld:default true . rdfs:label "concat_logfiles_apply_targ1" ; cwl:in , ; cwl:out ; cwl:run . cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.missingantennabehavior=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.missingantennabehavior=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.missingantennabehavior=" ; CommandLineBinding:separate false ] ; sld:type xsd:string , sld:null . cwl:source . sld:default true ; sld:type xsd:boolean , sld:null . rdfs:label "concat_logfiles_calib_targ2" ; cwl:in , ; cwl:out ; cwl:run . sld:default true . cwl:outputSource ; sld:type cwl:File . sld:default 0 . sld:default "ant" . rdfs:comment "Smooth only amplitudes" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-a" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-a" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-a" ] ; sld:default false ; sld:type xsd:boolean , sld:null . rdfs:label "add_missing_stations2" ; cwl:in , , , , , , , , ; cwl:out , ; cwl:run ; cwl:when "$(inputs.execute)" . cwl:source , , ; cwl:valueFrom "$(\"slow\"+self.join(''))" . sld:default "ant" . cwl:source . rdfs:comment "Do not smooth in frequency" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-q" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-q" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-q" ] ; sld:default false ; sld:type xsd:boolean , sld:null . cwl:linkMerge "merge_flattened" ; cwl:source . rdfs:comment "Solution table" ; sld:type xsd:string . cwl:pickValue "all_non_null" ; cwl:source . sld:default 1e+03 . a cwl:CommandLineTool ; rdfs:comment "Normalize the solutions to a given value WEIGHT: Weights compliant\n" ; ns1:original_cwlVersion "v1.2" ; cwl:arguments ( "--verbose" "$(inputs.input_h5parm.basename)" "parset.config" ) ; cwl:baseCommand ( "losoto" ) ; cwl:cwlVersion cwl:v1.2 ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:inputs , , , , ; cwl:outputs , ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_h5parm)" ; cwl:entryname "$(inputs.input_h5parm.basename)" ] ; cwl:listing [ cwl:entry "$(get_losoto_config('NORM').join('\\n'))" ; cwl:entryname "parset.config" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ; InlineJavascriptRequirement:expressionLib "function get_losoto_config(step_name) {\n var par = ['soltab = ' + inputs.soltab]\n if (inputs.ncpu !== null && inputs.ncpu !== undefined) par.push('ncpu='+inputs.ncpu);\n par.push(\"[\" + step_name + \"]\")\n par.push('operation=' + step_name)\n for(var field_name in inputs){\n if(field_name === 'input_h5parm' ||\n field_name === 'soltab' ||\n field_name === 'ncpu' || \n field_name === 'execute') continue;\n\n if(inputs[field_name] === null ||\n inputs[field_name] === 'null') continue;\n \n if(inputs[field_name][\"class\"] !== undefined &&\n (inputs[field_name][\"class\"] ===\"Directory\" ||\n inputs[field_name][\"class\"] ===\"File\")){\n par.push(field_name+'='+inputs[field_name].path)\n } else {\n par.push(field_name+'='+inputs[field_name])\n }\n }\n return par\n}\n\nfunction concatenate_path(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return '[' + object_list.join(',') + ']'\n \n}\n\nfunction concatenate_path_wsclean(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return object_list.join(' ')\n \n}" ] ; cwl:stderr "$(inputs.input_h5parm.basename)-losoto_err.log" ; cwl:stdout "$(inputs.input_h5parm.basename)-losoto.log" . sld:default 1e-03 . cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.updateweights=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.updateweights=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.updateweights=" ; CommandLineBinding:separate false ] ; sld:type xsd:string , sld:null . cwl:source . cwl:outputSource ; sld:type cwl:File . rdfs:comment "Maximum number of iterations" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.maxiter=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.maxiter=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.maxiter=" ; CommandLineBinding:separate false ] ; sld:default 50 ; sld:type xsd:int , sld:null . rdfs:label "replicate" ; cwl:in , , , ; cwl:out , ; cwl:run . rdfs:comment "Output solset name" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--outsolset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--outsolset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--outsolset" ] ; sld:default "sol000" ; sld:type xsd:string , sld:null . cwl:source . cwl:source . sld:default 8 . rdfs:label "BLsmooth1" ; cwl:in , , , ; cwl:out , ; cwl:run . cwl:outputSource ; sld:type cwl:File . cwl:linkMerge "merge_flattened" ; cwl:source . rdfs:label "write_solutions_amp" ; cwl:in , , , , , , , ; cwl:out , ; cwl:run ; cwl:when "$(inputs.execute)" . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.uvmmax=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.uvmmax=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.uvmmax=" ; CommandLineBinding:separate false ] ; sld:default 1e+15 ; sld:type xsd:float , sld:null . sld:default 1e+02 . cwl:pickValue "all_non_null" ; cwl:source . cwl:source . cwl:source . rdfs:label "concat_logfiles_losoto_amp" ; cwl:in , , ; cwl:out ; cwl:run ; cwl:when "$(inputs.execute)" . cwl:outputBinding [ CommandOutputBinding:glob "BLsmooth.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "BLsmooth.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "BLsmooth.log" ] ; sld:type cwl:File . sld:default "CORRECTED_DATA" . sld:default "apply_targ_slowtec" . cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.usebeammodel=True" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.usebeammodel=True" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.usebeammodel=True" ; CommandLineBinding:separate false ] ; sld:default false ; sld:type xsd:boolean , sld:null . sld:default "apply_targ_slowtec" . rdfs:comment "Flag only the unconverged solutions for which divergence was detected.\nAt the moment, this option is effective only for rotation+diagonal\nsolves, where divergence is detected when the amplitudes of any station\nare found to be more than a factor of 5 from the mean amplitude over all\nstations.\nIf divergence for any one station is detected, all stations are flagged\nfor that solution interval. Only effective when flagunconverged=true\nand mode=rotation+diagonal.\n" ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.flagdivergedonly=True" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.flagdivergedonly=True" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.flagdivergedonly=True" ] ; sld:default true ; sld:type xsd:boolean , sld:null . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . sld:type xsd:string . cwl:inputBinding [ CommandLineBinding:prefix "msout.storagemanager.databitrate=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "msout.storagemanager.databitrate=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "msout.storagemanager.databitrate=" ; CommandLineBinding:separate false ] ; sld:type xsd:int , sld:null . cwl:source ; cwl:valueFrom "$(self+'000')" . sld:default "sol000/amplitudeSmooth" . sld:default "ant" . cwl:source . cwl:source . sld:default true . cwl:source . rdfs:comment "Kernel size in Hz" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.smoothnessconstraint=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.smoothnessconstraint=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.smoothnessconstraint=" ; CommandLineBinding:separate false ] ; sld:default 0e+00 ; sld:type xsd:float , sld:null . cwl:pickValue "all_non_null" ; cwl:source . sld:default "target" . rdfs:comment "Minimum number of visibilities within a solution interval" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.minvisratio=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.minvisratio=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.minvisratio=" ; CommandLineBinding:separate false ] ; sld:default 0e+00 ; sld:type xsd:float , sld:null . rdfs:label "losoto_plot_phasediff" ; cwl:in , , , , , , , , , ; cwl:out , , ; cwl:run ; cwl:when "$(inputs.execute)" . rdfs:comment "Stepsize between iterations" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.stepsize=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.stepsize=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.stepsize=" ; CommandLineBinding:separate false ] ; sld:default 2e-01 ; sld:type xsd:float , sld:null . cwl:pickValue "all_non_null" ; cwl:source . cwl:source . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . sld:default 300 . sld:default "sol000" . rdfs:comment "Input Measurement Set" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "msin=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "msin=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "msin=" ; CommandLineBinding:separate false ] ; sld:type cwl:Directory . sld:default 500 . sld:default true . rdfs:comment "Input solution table" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--soltab_in" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--soltab_in" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--soltab_in" ] ; sld:default "phase000" ; sld:type xsd:string , sld:null . sld:default "Dysco" . sld:type xsd:int , sld:null . cwl:source , ; cwl:valueFrom "$(\"slow\"+self.join('')+\"_\")" . cwl:source . rdfs:comment "normalization is done in logspace" ; sld:type xsd:boolean , sld:null . rdfs:label "concat_logfiles_calib_targ_amp" ; cwl:in , , ; cwl:out ; cwl:run ; cwl:when "$(inputs.execute)" . sld:default "ph_poldif" . sld:default "CORRECTED_DATA" . sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . rdfs:comment "If False then weights are untouched, if True they are replicated\nlike data. Default: True.\n" ; sld:type xsd:boolean , sld:null . rdfs:label "calib_targ2" ; cwl:in , , , , , , , , , , , , , , , , ; cwl:out , , ; cwl:run . sld:default true . cwl:outputBinding [ CommandOutputBinding:glob "parset.config" ] ; cwl:outputBinding [ CommandOutputBinding:glob "parset.config" ] ; cwl:outputBinding [ CommandOutputBinding:glob "parset.config" ] ; cwl:outputBinding [ CommandOutputBinding:glob "parset.config" ] ; cwl:outputBinding [ CommandOutputBinding:glob "parset.config" ] ; cwl:outputBinding [ CommandOutputBinding:glob "parset.config" ] ; cwl:outputBinding [ CommandOutputBinding:glob "parset.config" ] ; sld:type cwl:File . rdfs:comment "The axis to plot in different colours - e.g. pol to get correlations with\n different colors.\n" ; sld:type xsd:string , sld:null . cwl:source ; cwl:valueFrom "$(self+'000')" . sld:default true . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . cwl:source . sld:default 15 . cwl:source . a cwl:Workflow ; rdfs:label "apply_calibrate_tec" ; ns1:original_cwlVersion "v1.2" ; Workflow:steps , , , , , , , , , , , , , , , ; cwl:cwlVersion cwl:v1.2 ; cwl:inputs , , , , , , , , , , ; cwl:outputs , , , , , , , , , , , . sld:default true . sld:default true . cwl:source . cwl:source . cwl:source . cwl:source . rdfs:comment "Do not backup the old WEIGHT_SPECTRUM in WEIGHT_SPECTRUM_ORIG" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-b" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-b" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-b" ] ; sld:default false ; sld:type xsd:boolean , sld:null . sld:default "MODEL_DATA" . rdfs:comment "Number of threads DP3 is allowed to use." ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "numthreads=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "numthreads=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "numthreads=" ; CommandLineBinding:separate false ] ; sld:type xsd:int , sld:null . cwl:pickValue "all_non_null" ; cwl:source . sld:default "sol000/amplitude000" . sld:type xsd:string , sld:null . cwl:outputBinding [ CommandOutputBinding:glob "add_missing_stations*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "add_missing_stations*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "add_missing_stations*.log" ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . cwl:linkMerge "merge_flattened" ; cwl:source . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . sld:default 300 . cwl:linkMerge "merge_flattened" ; cwl:source . sld:default 16 . sld:default "ampSmooth_" . cwl:source . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . a cwl:CommandLineTool ; rdfs:label "add_missing_stations" ; ns1:original_cwlVersion "v1.2" ; cwl:baseCommand ( "add_missing_stations.py" ) ; cwl:baseCommand ( "add_missing_stations.py" ) ; cwl:baseCommand ( "add_missing_stations.py" ) ; cwl:cwlVersion cwl:v1.2 ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:inputs , , , , , , , ; cwl:outputs , ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.h5parm)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.h5parm)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.h5parm)" ] ] ; cwl:stderr "add_missing_stations_err.log" ; cwl:stdout "add_missing_stations.log" . rdfs:comment "Input solset name" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insolset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insolset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insolset" ] ; sld:default "sol000" ; sld:type xsd:string , sld:null . rdfs:comment "Save statistics as JSON file" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "count.savetojson=True" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "count.savetojson=True" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "count.savetojson=True" ] ; sld:default true ; sld:type xsd:boolean , sld:null . rdfs:comment "removes all axes with the length of 1" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-q" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-q" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-q" ] ; sld:default false ; sld:type xsd:boolean . rdfs:label "concat_logfiles_calib_targ1" ; cwl:in , ; cwl:out ; cwl:run . rdfs:comment "This must be a len=2 axis and the plot will have the differential value\n- e.g. ‘pol’ to plot XX-YY.\n" ; sld:type xsd:string , sld:null . sld:default "sol000/tec000" . rdfs:comment "Use model data from the measurement set." ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.modeldatacolumns=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.modeldatacolumns=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.modeldatacolumns=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . cwl:source . sld:default "sol000/phase000" . rdfs:label "add_missing_stations1" ; cwl:in , , , , , , , ; cwl:out , ; cwl:run . cwl:source . cwl:source . sld:default true . sld:default "time" , "freq" . cwl:outputSource ; cwl:pickValue "all_non_null" ; sld:type cwl:File . a cwl:CommandLineTool ; rdfs:comment "Replace the values along a certain axis taking them from one specific axis\ncell\n" ; ns1:original_cwlVersion "v1.2" ; cwl:arguments ( "--verbose" "$(inputs.input_h5parm.basename)" "parset.config" ) ; cwl:baseCommand ( "losoto" ) ; cwl:cwlVersion cwl:v1.2 ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:inputs , , , , ; cwl:outputs , ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ cwl:entry "$(get_losoto_config('REPLICATEONAXIS').join('\\n'))" ; cwl:entryname "parset.config" ] ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_h5parm)" ; cwl:entryname "$(inputs.input_h5parm.basename)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ; InlineJavascriptRequirement:expressionLib "function get_losoto_config(step_name) {\n var par = ['soltab = ' + inputs.soltab]\n if (inputs.ncpu !== null && inputs.ncpu !== undefined) par.push('ncpu='+inputs.ncpu);\n par.push(\"[\" + step_name + \"]\")\n par.push('operation=' + step_name)\n for(var field_name in inputs){\n if(field_name === 'input_h5parm' ||\n field_name === 'soltab' ||\n field_name === 'ncpu' || \n field_name === 'execute') continue;\n\n if(inputs[field_name] === null ||\n inputs[field_name] === 'null') continue;\n \n if(inputs[field_name][\"class\"] !== undefined &&\n (inputs[field_name][\"class\"] ===\"Directory\" ||\n inputs[field_name][\"class\"] ===\"File\")){\n par.push(field_name+'='+inputs[field_name].path)\n } else {\n par.push(field_name+'='+inputs[field_name])\n }\n }\n return par\n}\n\nfunction concatenate_path(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return '[' + object_list.join(',') + ']'\n \n}\n\nfunction concatenate_path_wsclean(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return object_list.join(' ')\n \n}" ] ; cwl:stderr "$(inputs.input_h5parm.basename)-losoto_err.log" ; cwl:stdout "$(inputs.input_h5parm.basename)-losoto.log" . sld:default "SMOOTHED_DATA" . cwl:source . sld:default 8e+04 . sld:default "target" . sld:default true . sld:default "GSM" ; sld:type xsd:string , sld:null . sld:type xsd:boolean , sld:null . sld:default "tec" . rdfs:label "concat_logfiles_apply_targ" ; cwl:in , ; cwl:out ; cwl:run . rdfs:comment "Input Measurement Set(s)" ; cwl:inputBinding [ CommandLineBinding:itemSeparator "," ; CommandLineBinding:position 0 ; CommandLineBinding:prefix "msin=" ; CommandLineBinding:separate false ; cwl:valueFrom "[$(self.map(function(directory){ return directory.basename; }).join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:itemSeparator "," ; CommandLineBinding:position 0 ; CommandLineBinding:prefix "msin=" ; CommandLineBinding:separate false ; cwl:valueFrom "[$(self.map(function(directory){ return directory.basename; }).join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:itemSeparator "," ; CommandLineBinding:position 0 ; CommandLineBinding:prefix "msin=" ; CommandLineBinding:separate false ; cwl:valueFrom "[$(self.map(function(directory){ return directory.basename; }).join(','))]" ] ; sld:type [ sld:items cwl:Directory ; sld:type sld:array ] ; sld:type [ sld:items cwl:Directory ; sld:type sld:array ] ; sld:type [ sld:items cwl:Directory ; sld:type sld:array ] . cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)-losoto*.log" ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . cwl:source ; cwl:valueFrom "$(self==\"1\" ? true : false)" . rdfs:comment "Output solution table (has to be different from input solution table)" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--soltab_out" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--soltab_out" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--soltab_out" ] ; sld:default "GSMphase" ; sld:type xsd:string , sld:null . cwl:outputSource , ; cwl:pickValue "first_non_null" ; sld:type cwl:File . sld:default "first" . sld:default "MODEL_DATA" . rdfs:comment "A cell value in axisReplicate from which to copy the data values." ; sld:type xsd:string , sld:null . cwl:source , ; cwl:valueFrom "$(\"apply_targ_\"+self.join(''))" . a cwl:CommandLineTool ; rdfs:comment "Duplicate a table\n" ; ns1:original_cwlVersion "v1.2" ; cwl:arguments ( "--verbose" "$(inputs.input_h5parm.basename)" "parset.config" ) ; cwl:baseCommand ( "losoto" ) ; cwl:cwlVersion cwl:v1.2 ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:inputs , , ; cwl:outputs , ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ cwl:entry "$(get_losoto_config('DUPLICATE').join('\\n'))" ; cwl:entryname "parset.config" ] ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_h5parm)" ; cwl:entryname "$(inputs.input_h5parm.basename)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ; InlineJavascriptRequirement:expressionLib "function get_losoto_config(step_name) {\n var par = ['soltab = ' + inputs.soltab]\n if (inputs.ncpu !== null && inputs.ncpu !== undefined) par.push('ncpu='+inputs.ncpu);\n par.push(\"[\" + step_name + \"]\")\n par.push('operation=' + step_name)\n for(var field_name in inputs){\n if(field_name === 'input_h5parm' ||\n field_name === 'soltab' ||\n field_name === 'ncpu' || \n field_name === 'execute') continue;\n\n if(inputs[field_name] === null ||\n inputs[field_name] === 'null') continue;\n \n if(inputs[field_name][\"class\"] !== undefined &&\n (inputs[field_name][\"class\"] ===\"Directory\" ||\n inputs[field_name][\"class\"] ===\"File\")){\n par.push(field_name+'='+inputs[field_name].path)\n } else {\n par.push(field_name+'='+inputs[field_name])\n }\n }\n return par\n}\n\nfunction concatenate_path(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return '[' + object_list.join(',') + ']'\n \n}\n\nfunction concatenate_path_wsclean(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return object_list.join(' ')\n \n}" ] ; cwl:stderr "$(inputs.input_h5parm.basename)-losoto_err.log" ; cwl:stdout "$(inputs.input_h5parm.basename)-losoto.log" . cwl:outputSource ; sld:type cwl:File . rdfs:comment "Solution table" ; sld:type xsd:string . cwl:pickValue "all_non_null" ; cwl:source . rdfs:comment "Gives an indication on how the smoothing varies with" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-s" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-s" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-s" ] ; sld:default 1e+00 ; sld:type xsd:float , sld:null . sld:default true . rdfs:comment "Controls the accuracy to be reached." ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.tolerance=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.tolerance=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.tolerance=" ; CommandLineBinding:separate false ] ; sld:default 1e-03 ; sld:type xsd:float , sld:null . sld:default "ant" . sld:default true . cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.outh5parmname)-parm_collector_output*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.outh5parmname)-parm_collector_output*.log" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.outh5parmname)-parm_collector_output*.log" ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . sld:default "sol000" . rdfs:comment "List of model data to be reused from previous (ddecal) step(s). The list should contain the model data names, as set by a previous step" ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.reusemodel=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.reusemodel=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.reusemodel=" ; CommandLineBinding:separate false ; CommandLineBinding:shellQuote false ; cwl:valueFrom "[$(self.join(','))]" ] ; sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . rdfs:comment "Input data Column" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "msin.datacolumn=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "msin.datacolumn=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "msin.datacolumn=" ; CommandLineBinding:separate false ] ; sld:default "DATA" ; sld:type xsd:string . rdfs:comment "Input solset name" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insolset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insolset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--insolset" ] ; sld:default "sol000" ; sld:type xsd:string , sld:null . rdfs:label "concat_logfiles_BLsmooth" ; cwl:in , ; cwl:out ; cwl:run . cwl:source . sld:default 2e-01 . sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . sld:default "target" . sld:default "tec" . rdfs:label "calib_targ_amp" ; cwl:in , , , , , , , , , , , , , , , ; cwl:out , , ; cwl:run ; cwl:when "$(inputs.execute)" . cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.solset=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.solset=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "applycal.solset=" ; CommandLineBinding:separate false ] ; sld:default "sol000" ; sld:type xsd:string . cwl:source ; cwl:valueFrom "$(\"BLsmooth\"+self)" . rdfs:comment "H5parm to which this action should be performed." ; cwl:inputBinding [ CommandLineBinding:position 1 ] ; cwl:inputBinding [ CommandLineBinding:position 1 ] ; cwl:inputBinding [ CommandLineBinding:position 1 ] ; sld:default "output.h5" ; sld:type cwl:File . rdfs:comment "Make a plot containing antenna coordinates in x,y and in color the value\n to plot, axesInPlot must be [ant].\n" ; sld:default false ; sld:type xsd:boolean , sld:null . cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)-losoto*.log" ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . cwl:linkMerge "merge_flattened" ; cwl:source . rdfs:comment "If WEIGHT_SPECTRUM_ORIG exists then restore it before smoothing" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-r" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-r" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-r" ] ; sld:default false ; sld:type xsd:boolean , sld:null . sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . cwl:source ; cwl:valueFrom "$(\"apply_targ_slowtec\"+self)" . cwl:source ; cwl:valueFrom "$(\"apply_targ_fasttec\"+self)" . sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . sld:default "target" . rdfs:label "write_solutions2" ; cwl:in , , , , , , , ; cwl:out , ; cwl:run ; cwl:when "$(inputs.execute)" . rdfs:comment "Min max value for the independent variable (0 means automatic).\n" ; sld:type sld:null ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] ; sld:type [ sld:items xsd:float ; sld:type sld:array ] . sld:type cwl:File . sld:default 5e-01 . sld:default "CORRECTED_DATA" . sld:default "log" ; sld:type xsd:string , sld:null . rdfs:comment "Output h5parm" ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.outh5parmname)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.outh5parmname)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.outh5parmname)" ] ; sld:type cwl:File . rdfs:comment "Initialize solver with the solutions of the previous time slot" ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.propagatesolutions=True" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.propagatesolutions=True" ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.propagatesolutions=True" ] ; sld:default true ; sld:type xsd:boolean , sld:null . sld:default true . sld:default "apply_targ" . rdfs:comment "Number of columns in a multi-table image. By default is automatically\nchosen.\n" ; sld:type xsd:int , sld:null . sld:type cwl:File . cwl:source , . rdfs:label "losoto_plot_phase" ; cwl:in , , , , , , , , ; cwl:out , , ; cwl:run ; cwl:when "$(inputs.execute)" . rdfs:label "calib_targ1" ; cwl:in , , , , , , , , , , , , , , , , , ; cwl:out , , ; cwl:run . cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)-losoto*.log" ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . rdfs:comment "Input Measurement Set string (including dummy.ms)" ; cwl:inputBinding [ CommandLineBinding:itemSeparator "," ; CommandLineBinding:position 1 ; CommandLineBinding:prefix "msin=" ; CommandLineBinding:separate false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:itemSeparator "," ; CommandLineBinding:position 1 ; CommandLineBinding:prefix "msin=" ; CommandLineBinding:separate false ; cwl:valueFrom "[$(self.join(','))]" ] ; cwl:inputBinding [ CommandLineBinding:itemSeparator "," ; CommandLineBinding:position 1 ; CommandLineBinding:prefix "msin=" ; CommandLineBinding:separate false ; cwl:valueFrom "[$(self.join(','))]" ] ; sld:type sld:null ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] ; sld:type [ sld:items xsd:string ; sld:type sld:array ] . cwl:pickValue "all_non_null" ; cwl:source . cwl:pickValue "all_non_null" ; cwl:source . cwl:source . sld:default true . sld:type cwl:Directory . cwl:source . sld:default true . sld:default "[CR]S*&" ; sld:type xsd:string , sld:null . sld:default -3.14e+00 , 3.14e+00 . rdfs:label "concat_logfiles_apply_targ2" ; cwl:in , , ; cwl:out ; cwl:run ; cwl:when "$(inputs.execute)" . sld:type xsd:boolean , sld:null . cwl:source . sld:type xsd:string , sld:null . sld:default "pol" . a cwl:CommandLineTool ; rdfs:comment "This operation for LoSoTo implements basic plotting WEIGHT:\n flag-only compliant, no need for weight\n" ; ns1:original_cwlVersion "v1.2" ; cwl:arguments ( "run_losoto_plot.sh" ) ; cwl:arguments ( "run_losoto_plot.sh" ) ; cwl:arguments ( "run_losoto_plot.sh" ) ; cwl:arguments ( "run_losoto_plot.sh" ) ; cwl:arguments ( "run_losoto_plot.sh" ) ; cwl:arguments ( "run_losoto_plot.sh" ) ; cwl:arguments ( "run_losoto_plot.sh" ) ; cwl:baseCommand ( "bash" ) ; cwl:baseCommand ( "bash" ) ; cwl:baseCommand ( "bash" ) ; cwl:baseCommand ( "bash" ) ; cwl:baseCommand ( "bash" ) ; cwl:baseCommand ( "bash" ) ; cwl:baseCommand ( "bash" ) ; cwl:cwlVersion cwl:v1.2 ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:inputs , , , , , , , , , , , , , , , , , , , , , , ; cwl:outputs , , ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ cwl:entry "#!/bin/bash\nset -e\nINPUT_H5PARM=$(inputs.input_h5parm.basename)\nDO_PLOTS=$(inputs.execute)\nif [ \"$DO_PLOTS\" = \"true\" ]; then\n losoto --verbose $INPUT_H5PARM parset.config\nelse\n echo Skipped plotting 3rd order tec solutions\nfi\n" ; cwl:entryname "run_losoto_plot.sh" ] ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_h5parm)" ; cwl:entryname "$(inputs.input_h5parm.basename)" ] ; cwl:listing [ cwl:entry "$(get_losoto_config('PLOT').join('\\n'))" ; cwl:entryname "parset.config" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ cwl:entry "$(get_losoto_config('PLOT').join('\\n'))" ; cwl:entryname "parset.config" ] ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_h5parm)" ; cwl:entryname "$(inputs.input_h5parm.basename)" ] ; cwl:listing [ cwl:entry "#!/bin/bash\nset -e\nINPUT_H5PARM=$(inputs.input_h5parm.basename)\nDO_PLOTS=$(inputs.execute)\nif [ \"$DO_PLOTS\" = \"true\" ]; then\n losoto --verbose $INPUT_H5PARM parset.config\nelse\n echo Skipped plotting 3rd order tec solutions\nfi\n" ; cwl:entryname "run_losoto_plot.sh" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ cwl:entry "#!/bin/bash\nset -e\nINPUT_H5PARM=$(inputs.input_h5parm.basename)\nDO_PLOTS=$(inputs.execute)\nif [ \"$DO_PLOTS\" = \"true\" ]; then\n losoto --verbose $INPUT_H5PARM parset.config\nelse\n echo Skipped plotting 3rd order tec solutions\nfi\n" ; cwl:entryname "run_losoto_plot.sh" ] ; cwl:listing [ cwl:entry "$(get_losoto_config('PLOT').join('\\n'))" ; cwl:entryname "parset.config" ] ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_h5parm)" ; cwl:entryname "$(inputs.input_h5parm.basename)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ; InlineJavascriptRequirement:expressionLib "function get_losoto_config(step_name) {\n var par = ['soltab = ' + inputs.soltab]\n if (inputs.ncpu !== null && inputs.ncpu !== undefined) par.push('ncpu='+inputs.ncpu);\n par.push(\"[\" + step_name + \"]\")\n par.push('operation=' + step_name)\n for(var field_name in inputs){\n if(field_name === 'input_h5parm' ||\n field_name === 'soltab' ||\n field_name === 'ncpu' || \n field_name === 'execute') continue;\n\n if(inputs[field_name] === null ||\n inputs[field_name] === 'null') continue;\n \n if(inputs[field_name][\"class\"] !== undefined &&\n (inputs[field_name][\"class\"] ===\"Directory\" ||\n inputs[field_name][\"class\"] ===\"File\")){\n par.push(field_name+'='+inputs[field_name].path)\n } else {\n par.push(field_name+'='+inputs[field_name])\n }\n }\n return par\n}\n\nfunction concatenate_path(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return '[' + object_list.join(',') + ']'\n \n}\n\nfunction concatenate_path_wsclean(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return object_list.join(' ')\n \n}" ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ cwl:entry "#!/bin/bash\nset -e\nINPUT_H5PARM=$(inputs.input_h5parm.basename)\nDO_PLOTS=$(inputs.execute)\nif [ \"$DO_PLOTS\" = \"true\" ]; then\n losoto --verbose $INPUT_H5PARM parset.config\nelse\n echo Skipped plotting 3rd order tec solutions\nfi\n" ; cwl:entryname "run_losoto_plot.sh" ] ; cwl:listing [ cwl:entry "$(get_losoto_config('PLOT').join('\\n'))" ; cwl:entryname "parset.config" ] ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_h5parm)" ; cwl:entryname "$(inputs.input_h5parm.basename)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ; InlineJavascriptRequirement:expressionLib "function get_losoto_config(step_name) {\n var par = ['soltab = ' + inputs.soltab]\n if (inputs.ncpu !== null && inputs.ncpu !== undefined) par.push('ncpu='+inputs.ncpu);\n par.push(\"[\" + step_name + \"]\")\n par.push('operation=' + step_name)\n for(var field_name in inputs){\n if(field_name === 'input_h5parm' ||\n field_name === 'soltab' ||\n field_name === 'ncpu' || \n field_name === 'execute') continue;\n\n if(inputs[field_name] === null ||\n inputs[field_name] === 'null') continue;\n \n if(inputs[field_name][\"class\"] !== undefined &&\n (inputs[field_name][\"class\"] ===\"Directory\" ||\n inputs[field_name][\"class\"] ===\"File\")){\n par.push(field_name+'='+inputs[field_name].path)\n } else {\n par.push(field_name+'='+inputs[field_name])\n }\n }\n return par\n}\n\nfunction concatenate_path(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return '[' + object_list.join(',') + ']'\n \n}\n\nfunction concatenate_path_wsclean(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return object_list.join(' ')\n \n}" ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_h5parm)" ; cwl:entryname "$(inputs.input_h5parm.basename)" ] ; cwl:listing [ cwl:entry "$(get_losoto_config('PLOT').join('\\n'))" ; cwl:entryname "parset.config" ] ; cwl:listing [ cwl:entry "#!/bin/bash\nset -e\nINPUT_H5PARM=$(inputs.input_h5parm.basename)\nDO_PLOTS=$(inputs.execute)\nif [ \"$DO_PLOTS\" = \"true\" ]; then\n losoto --verbose $INPUT_H5PARM parset.config\nelse\n echo Skipped plotting 3rd order tec solutions\nfi\n" ; cwl:entryname "run_losoto_plot.sh" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ; InlineJavascriptRequirement:expressionLib "function get_losoto_config(step_name) {\n var par = ['soltab = ' + inputs.soltab]\n if (inputs.ncpu !== null && inputs.ncpu !== undefined) par.push('ncpu='+inputs.ncpu);\n par.push(\"[\" + step_name + \"]\")\n par.push('operation=' + step_name)\n for(var field_name in inputs){\n if(field_name === 'input_h5parm' ||\n field_name === 'soltab' ||\n field_name === 'ncpu' || \n field_name === 'execute') continue;\n\n if(inputs[field_name] === null ||\n inputs[field_name] === 'null') continue;\n \n if(inputs[field_name][\"class\"] !== undefined &&\n (inputs[field_name][\"class\"] ===\"Directory\" ||\n inputs[field_name][\"class\"] ===\"File\")){\n par.push(field_name+'='+inputs[field_name].path)\n } else {\n par.push(field_name+'='+inputs[field_name])\n }\n }\n return par\n}\n\nfunction concatenate_path(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return '[' + object_list.join(',') + ']'\n \n}\n\nfunction concatenate_path_wsclean(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return object_list.join(' ')\n \n}" ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ; InlineJavascriptRequirement:expressionLib "function get_losoto_config(step_name) {\n var par = ['soltab = ' + inputs.soltab]\n if (inputs.ncpu !== null && inputs.ncpu !== undefined) par.push('ncpu='+inputs.ncpu);\n par.push(\"[\" + step_name + \"]\")\n par.push('operation=' + step_name)\n for(var field_name in inputs){\n if(field_name === 'input_h5parm' ||\n field_name === 'soltab' ||\n field_name === 'ncpu' || \n field_name === 'execute') continue;\n\n if(inputs[field_name] === null ||\n inputs[field_name] === 'null') continue;\n \n if(inputs[field_name][\"class\"] !== undefined &&\n (inputs[field_name][\"class\"] ===\"Directory\" ||\n inputs[field_name][\"class\"] ===\"File\")){\n par.push(field_name+'='+inputs[field_name].path)\n } else {\n par.push(field_name+'='+inputs[field_name])\n }\n }\n return par\n}\n\nfunction concatenate_path(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return '[' + object_list.join(',') + ']'\n \n}\n\nfunction concatenate_path_wsclean(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return object_list.join(' ')\n \n}" ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ cwl:entry "#!/bin/bash\nset -e\nINPUT_H5PARM=$(inputs.input_h5parm.basename)\nDO_PLOTS=$(inputs.execute)\nif [ \"$DO_PLOTS\" = \"true\" ]; then\n losoto --verbose $INPUT_H5PARM parset.config\nelse\n echo Skipped plotting 3rd order tec solutions\nfi\n" ; cwl:entryname "run_losoto_plot.sh" ] ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_h5parm)" ; cwl:entryname "$(inputs.input_h5parm.basename)" ] ; cwl:listing [ cwl:entry "$(get_losoto_config('PLOT').join('\\n'))" ; cwl:entryname "parset.config" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable true ; cwl:entry "$(inputs.input_h5parm)" ; cwl:entryname "$(inputs.input_h5parm.basename)" ] ; cwl:listing [ cwl:entry "#!/bin/bash\nset -e\nINPUT_H5PARM=$(inputs.input_h5parm.basename)\nDO_PLOTS=$(inputs.execute)\nif [ \"$DO_PLOTS\" = \"true\" ]; then\n losoto --verbose $INPUT_H5PARM parset.config\nelse\n echo Skipped plotting 3rd order tec solutions\nfi\n" ; cwl:entryname "run_losoto_plot.sh" ] ; cwl:listing [ cwl:entry "$(get_losoto_config('PLOT').join('\\n'))" ; cwl:entryname "parset.config" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ; InlineJavascriptRequirement:expressionLib "function get_losoto_config(step_name) {\n var par = ['soltab = ' + inputs.soltab]\n if (inputs.ncpu !== null && inputs.ncpu !== undefined) par.push('ncpu='+inputs.ncpu);\n par.push(\"[\" + step_name + \"]\")\n par.push('operation=' + step_name)\n for(var field_name in inputs){\n if(field_name === 'input_h5parm' ||\n field_name === 'soltab' ||\n field_name === 'ncpu' || \n field_name === 'execute') continue;\n\n if(inputs[field_name] === null ||\n inputs[field_name] === 'null') continue;\n \n if(inputs[field_name][\"class\"] !== undefined &&\n (inputs[field_name][\"class\"] ===\"Directory\" ||\n inputs[field_name][\"class\"] ===\"File\")){\n par.push(field_name+'='+inputs[field_name].path)\n } else {\n par.push(field_name+'='+inputs[field_name])\n }\n }\n return par\n}\n\nfunction concatenate_path(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return '[' + object_list.join(',') + ']'\n \n}\n\nfunction concatenate_path_wsclean(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return object_list.join(' ')\n \n}" ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ; InlineJavascriptRequirement:expressionLib "function get_losoto_config(step_name) {\n var par = ['soltab = ' + inputs.soltab]\n if (inputs.ncpu !== null && inputs.ncpu !== undefined) par.push('ncpu='+inputs.ncpu);\n par.push(\"[\" + step_name + \"]\")\n par.push('operation=' + step_name)\n for(var field_name in inputs){\n if(field_name === 'input_h5parm' ||\n field_name === 'soltab' ||\n field_name === 'ncpu' || \n field_name === 'execute') continue;\n\n if(inputs[field_name] === null ||\n inputs[field_name] === 'null') continue;\n \n if(inputs[field_name][\"class\"] !== undefined &&\n (inputs[field_name][\"class\"] ===\"Directory\" ||\n inputs[field_name][\"class\"] ===\"File\")){\n par.push(field_name+'='+inputs[field_name].path)\n } else {\n par.push(field_name+'='+inputs[field_name])\n }\n }\n return par\n}\n\nfunction concatenate_path(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return '[' + object_list.join(',') + ']'\n \n}\n\nfunction concatenate_path_wsclean(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return object_list.join(' ')\n \n}" ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ; InlineJavascriptRequirement:expressionLib "function get_losoto_config(step_name) {\n var par = ['soltab = ' + inputs.soltab]\n if (inputs.ncpu !== null && inputs.ncpu !== undefined) par.push('ncpu='+inputs.ncpu);\n par.push(\"[\" + step_name + \"]\")\n par.push('operation=' + step_name)\n for(var field_name in inputs){\n if(field_name === 'input_h5parm' ||\n field_name === 'soltab' ||\n field_name === 'ncpu' || \n field_name === 'execute') continue;\n\n if(inputs[field_name] === null ||\n inputs[field_name] === 'null') continue;\n \n if(inputs[field_name][\"class\"] !== undefined &&\n (inputs[field_name][\"class\"] ===\"Directory\" ||\n inputs[field_name][\"class\"] ===\"File\")){\n par.push(field_name+'='+inputs[field_name].path)\n } else {\n par.push(field_name+'='+inputs[field_name])\n }\n }\n return par\n}\n\nfunction concatenate_path(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return '[' + object_list.join(',') + ']'\n \n}\n\nfunction concatenate_path_wsclean(object_list){\n object_list.forEach(function (x, index, arr) {arr[index] = x.path;});\n return object_list.join(' ')\n \n}" ] ; cwl:stderr "$(inputs.input_h5parm.basename)-losoto_err.log" ; cwl:stdout "$(inputs.input_h5parm.basename)-losoto.log" . cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_h5parm.basename)" ] ; sld:type cwl:File . rdfs:label "concat_logfiles_calib_targ2" ; cwl:in , , ; cwl:out ; cwl:run . rdfs:comment "Size of the image [x,y], if one of the values is 0, then it is\nautomatically chosen. By default automatic set.\n" ; sld:default 0 ; sld:type [ sld:items xsd:int ; sld:type sld:array ] ; sld:type [ sld:items xsd:int ; sld:type sld:array ] ; sld:type [ sld:items xsd:int ; sld:type sld:array ] ; sld:type [ sld:items xsd:int ; sld:type sld:array ] ; sld:type [ sld:items xsd:int ; sld:type sld:array ] ; sld:type [ sld:items xsd:int ; sld:type sld:array ] ; sld:type [ sld:items xsd:int ; sld:type sld:array ] . cwl:source . cwl:pickValue "all_non_null" ; cwl:source . rdfs:comment "Filename of output H5Parm" ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.h5parm=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.h5parm=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "ddecal.h5parm=" ; CommandLineBinding:separate false ] ; sld:default "instrument.h5" ; sld:type xsd:string , sld:null . sld:default 250 . rdfs:comment "Input data Column" ; cwl:inputBinding [ CommandLineBinding:prefix "msin.datacolumn=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "msin.datacolumn=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "msin.datacolumn=" ; CommandLineBinding:separate false ] ; sld:default "DATA" ; sld:type xsd:string , sld:null . rdfs:comment "Number of channels in each channel block, for which the solution is assumed to be constant." ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.nchan=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.nchan=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "ddecal.nchan=" ; CommandLineBinding:separate false ] ; sld:default 1 ; sld:type xsd:int , sld:null . cwl:source . sld:default "sol000/amplitude000" . cwl:source . cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . rdfs:comment "Output Measurement Set" ; cwl:inputBinding [ CommandLineBinding:prefix "msout=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "msout=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "msout=" ; CommandLineBinding:separate false ] ; sld:default "" ; sld:type xsd:string , sld:null . cwl:source . rdfs:comment "Gives an indication on how strong is the ionosphere" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-f" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-f" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "-f" ] ; sld:default 1e-02 ; sld:type xsd:float , sld:null . cwl:source , , ; cwl:valueFrom "$(\"slow\"+self.join(''))" . sld:default "diagonal" . rdfs:comment "Output h5parm" ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_file.basename)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_file.basename)" ] ; cwl:outputBinding [ CommandOutputBinding:glob "$(inputs.input_file.basename)" ] ; sld:type cwl:File . cwl:source . rdfs:comment "Tables to “add” (e.g. ‘sol000/tec000’), it works only for tec and clock\n to be added to phases.\n" ; sld:type xsd:string , sld:null . sld:default true . cwl:source . sld:type xsd:string . cwl:source . rdfs:comment "Make a movie summing up all the produced plots.\n" ; sld:default false ; sld:type xsd:boolean , sld:null . cwl:outputSource ; sld:type cwl:File . rdfs:comment "Input calibration solutions" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--solset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--solset" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--solset" ] ; sld:default "sol000" ; sld:type xsd:string , sld:null . rdfs:comment "Antenna string to be processed" ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--bad_antennas" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--bad_antennas" ] ; cwl:inputBinding [ CommandLineBinding:position 0 ; CommandLineBinding:prefix "--bad_antennas" ] ; sld:default "[CR]S*&" ; sld:type xsd:string , sld:null . rdfs:comment "List of h5parm files" ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; cwl:inputBinding [ CommandLineBinding:position 0 ] ; sld:type cwl:File ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . a cwl:CommandLineTool ; ns1:original_cwlVersion "v1.2" ; cwl:arguments ( "steps=[ddecal,count]" ) ; cwl:arguments ( "steps=[ddecal,count]" ) ; cwl:arguments ( "steps=[ddecal,count]" ) ; cwl:baseCommand ( "DP3" ) ; cwl:baseCommand ( "DP3" ) ; cwl:baseCommand ( "DP3" ) ; cwl:cwlVersion cwl:v1.2 ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:hints [ a cwl:DockerRequirement ; DockerRequirement:dockerPull "astronrd/linc" ] ; cwl:inputs , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , ; cwl:outputs , , , ; cwl:requirements [ a cwl:ResourceRequirement ; ResourceRequirement:coresMin "$(inputs.max_dp3_threads)" ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "$(inputs.msin)" ] ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "$(inputs.msin)" ] ] ; cwl:requirements [ a cwl:ResourceRequirement ; ResourceRequirement:coresMin "$(inputs.max_dp3_threads)" ] ; cwl:requirements [ a cwl:InitialWorkDirRequirement ; cwl:listing [ Dirent:writable false ; cwl:entry "$(inputs.msin)" ] ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:ResourceRequirement ; ResourceRequirement:coresMin "$(inputs.max_dp3_threads)" ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:requirements [ a cwl:InlineJavascriptRequirement ] ; cwl:stderr "ddecal_err.log" ; cwl:stdout "ddecal.log" . rdfs:comment "What storage manager to use." ; cwl:inputBinding [ CommandLineBinding:prefix "msout.storagemanager=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "msout.storagemanager=" ; CommandLineBinding:separate false ] ; cwl:inputBinding [ CommandLineBinding:prefix "msout.storagemanager=" ; CommandLineBinding:separate false ] ; sld:default "" ; sld:type xsd:string , sld:null . cwl:source ; cwl:valueFrom "$(\"losoto_slowtec\"+self)" . cwl:source . cwl:source ; cwl:valueFrom "$(\"losoto_fasttec\"+self)" . sld:default true . cwl:outputSource ; cwl:pickValue "all_non_null" ; sld:type [ sld:items cwl:File ; sld:type sld:array ] . sld:type xsd:string , sld:null . cwl:source . cwl:linkMerge "merge_flattened" ; cwl:source . sld:default 8e+04 .