saqc: saqc.xml annotate

annotate saqc.xml @ 0:035ed250268e draft default tip

planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe

author	ufz
date	Sat, 16 Aug 2025 11:42:54 +0000
parents
children

rev	line source
0 035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1 <tool name="SaQC" id="saqc" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="22.01">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	2 <description>quality control pipelines for environmental sensor data</description>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	3 <macros>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	4 <import>macros.xml</import>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	5 <import>test_macros.xml</import>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	6 </macros>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	7 <expand macro="requirements"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	8 <version_command><![CDATA[python -c 'import saqc; print(saqc.__version__)']]></version_command>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	9 <command><![CDATA[#if str($run_test_mode) == "true":
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	10 '$__tool_directory__'/json_to_saqc_config.py '$param_conf' > config.csv
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	11 #else
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	12 '$__tool_directory__'/json_to_saqc_config.py '$param_conf' > config.csv &&
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	13 #for $i, $d in enumerate($data)
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	14 ##maybe link to element_identifier
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	15 ln -s '$d' '${i}.csv' &&
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	16 #end for
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	17 saqc --config config.csv
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	18 #for $i, $d in enumerate($data)
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	19 --data '${i}.csv'
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	20 #end for
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	21 --outfile output.csv
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	22 #end if]]></command>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	23 <configfiles>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	24 <inputs name="param_conf"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	25 </configfiles>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	26 <inputs>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	27 <param argument="--data" type="data" label="Input table(s)" format="csv" multiple="true"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	28 <param name="run_test_mode" type="hidden" value="false" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	29 <repeat name="methods_repeat" title="Methods (add multiple QC steps)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	30 <conditional name="module_cond" label="SaQC Module">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	31 <param name="module_select" type="select" label="Select SaQC module">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	32 <option value="breaks">breaks: Detecting breaks in data</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	33 <option value="changepoints">changepoints: changepoints</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	34 <option value="constants">constants: constants</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	35 <option value="curvefit">curvefit: curvefit</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	36 <option value="drift">drift: drift</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	37 <option value="flagtools">flagtools: flagtools</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	38 <option value="generic">generic: generic</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	39 <option value="interpolation">interpolation: interpolation</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	40 <option value="noise">noise: noise</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	41 <option value="outliers">outliers: outliers</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	42 <option value="pattern">pattern: pattern</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	43 <option value="resampling">resampling: resampling</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	44 <option value="residuals">residuals: residuals</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	45 <option value="rolling">rolling: rolling</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	46 <option value="scores">scores: scores</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	47 <option value="tools">tools: tools</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	48 <option value="transformation">transformation: transformation</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	49 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	50 <when value="breaks">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	51 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	52 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	53 <option value="flagIsolated">flagIsolated: Find and flag temporal isolated groups of data</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	54 <option value="flagJumps">flagJumps: Flag jumps and drops in data</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	55 <option value="flagMissing">flagMissing: Flag NaNs in data</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	56 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	57 <when value="flagIsolated">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	58 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	59 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	60 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	61 <param argument="gap_window" type="text" value="" label="Minimum gap size required before and after a data group to consider it isolated" help="See condition (2) and (3)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	62 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	63 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	64 <param argument="group_window" type="text" value="" label="Maximum size of a data chunk to consider it a candidate for an isolated group" help="Data chunks that are bigger than the `group_window` are ignored. This does not include the possible gaps surrounding it. See condition (1)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	65 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	66 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	67 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	68 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	69 <when value="flagJumps">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	70 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	71 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	72 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	73 <param argument="thresh" type="float" value="" label="Threshold value by which the mean of data has to jump, to trigger flagging" help="Threshold value by which the mean of data has to jump, to trigger flagging"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	74 <param argument="window" type="text" value="" label="Size of the two moving windows" help="This determines the number of observations used for calculating the mean in every window. The window size should be big enough to yield enough samples for a reliable mean calculation, but it should also not be arbitrarily big, since it also limits the density of jumps that can be detected. More precisely: Jumps that are not distanced to each other by more than three fourth (3/4) of the selected `window` size, will not be detected reliably">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	75 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	76 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	77 <param argument="min_periods" type="integer" value="1" optional="true" label="min_periods" help="The minimum number of observations in `window` required to calculate a valid mean value"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	78 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	79 <param argument="dfilter" type="float" value="-inf" optional="true" label="dfilter" help="Any, optional Defines which observations will be masked based on the already existing flags. Any data point with a flag equal or worse to this threshold will be passed as ``NaN`` to the function. Defaults to the ``DFILTER_ALL`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	80 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	81 <when value="flagMissing">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	82 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	83 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	84 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	85 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	86 <param argument="dfilter" type="float" value="-inf" optional="true" label="dfilter" help="Any, optional Defines which observations will be masked based on the already existing flags. Any data point with a flag equal or worse to this threshold will be passed as ``NaN`` to the function. Defaults to the ``DFILTER_ALL`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	87 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	88 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	89 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	90 <when value="changepoints">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	91 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	92 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	93 <option value="assignChangePointCluster">assignChangePointCluster: Label data where it changes significantly</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	94 <option value="flagChangePoints">flagChangePoints: Flag values that represent a system state transition</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	95 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	96 <when value="assignChangePointCluster">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	97 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	98 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	99 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	100 <param argument="stat_func" type="text" value="" label="A function that assigns a value to every twin window" help="Left window content will be passed to first variable, right window content will be passed to the second">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	101 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	102 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	103 <param argument="thresh_func" type="text" value="" label="thresh_func" help="A function that determines the value level, exceeding wich qualifies a timestamps func value as denoting a changepoint">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	104 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	105 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	106 <param argument="window" type="text" value="" label="Size of the rolling windows the calculation is performed in" help="If it is a single frequency offset, it applies for the backward- and the forward-facing window. If two offsets (as a tuple) is passed the first defines the size of the backward facing window, the second the size of the forward facing window (String or two comma-separated strings, e.g., val1,val2)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	107 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	108 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	109 <param argument="min_periods" type="text" value="" label="min_periods" help="Minimum number of observations in a window required to perform the changepoint test. If it is a tuple of two int, the first refer to the backward-, the second to the forward-facing window (Integer or two comma-separated integers, e.g., 1,2)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	110 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	111 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	112 <param argument="reduce_window" type="text" optional="true" label="reduce_window" help="The sliding window search method is not an exact CP search method and usually there won't be detected a single changepoint, but a region of change around a changepoint. If `reduce_window` is given, for every window of size `reduce_window`, there will be selected the value with index `reduce_func(x, y)` and the others will be dropped. If `reduce_window` is None, the reduction window size equals the twin window size, the changepoints have been detected with"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	113 <param argument="reduce_func" type="text" value="<function ChangepointsMixin.<lambda> at 0x789a868a0e00>" optional="true" label="reduce_func" help="default argmax A function that must return an index value upon input of two arrays x and y. First input parameter will hold the result from the stat_func evaluation for every reduction window. Second input parameter holds the result from the thresh_func evaluation. The default reduction function just selects the value that maximizes the stat_func"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	114 <param argument="model_by_resids" type="boolean" label="If True, the results of `stat_funcs` are written, otherwise the regime labels" help="If True, the results of `stat_funcs` are written, otherwise the regime labels" checked="false" truevalue="model_by_resids" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	115 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	116 <when value="flagChangePoints">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	117 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	118 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	119 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	120 <param argument="stat_func" type="text" value="" label="A function that assigns a value to every twin window" help="The backward-facing window content will be passed as the first array, the forward-facing window content as the second">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	121 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	122 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	123 <param argument="thresh_func" type="text" value="" label="thresh_func" help="A function that determines the value level, exceeding wich qualifies a timestamps func value as denoting a change-point">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	124 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	125 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	126 <param argument="window" type="text" value="" label="Size of the moving windows" help="This is the number of observations used for calculating the statistic. If it is a single frequency offset, it applies for the backward- and the forward-facing window. If two offsets (as a tuple) is passed the first defines the size of the backward facing window, the second the size of the forward facing window (String or two comma-separated strings, e.g., val1,val2)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	127 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	128 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	129 <param argument="min_periods" type="text" value="" label="min_periods" help="Minimum number of observations in a window required to perform the changepoint test. If it is a tuple of two int, the first refer to the backward-, the second to the forward-facing window (Integer or two comma-separated integers, e.g., 1,2)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	130 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	131 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	132 <param argument="reduce_window" type="text" optional="true" label="reduce_window" help="The sliding window search method is not an exact CP search method and usually there wont be detected a single changepoint, but a region of change around a changepoint. If `reduce_window` is given, for every window of size `reduce_window`, there will be selected the value with index `reduce_func(x, y)` and the others will be dropped. If `reduce_window` is None, the reduction window size equals the twin window size, the changepoints have been detected with"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	133 <param argument="reduce_func" type="text" value="<function ChangepointsMixin.<lambda> at 0x789a868a0c20>" optional="true" label="reduce_func" help="default argmax A function that must return an index value upon input of two arrays x and y. First input parameter will hold the result from the stat_func evaluation for every reduction window. Second input parameter holds the result from the `thresh_func` evaluation. The default reduction function just selects the value that maximizes the `stat_func`"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	134 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	135 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	136 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	137 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	138 <when value="constants">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	139 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	140 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	141 <option value="flagByVariance">flagByVariance: Flag low-variance data</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	142 <option value="flagConstants">flagConstants: Flag constant data values</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	143 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	144 <when value="flagByVariance">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	145 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	146 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	147 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	148 <param argument="window" type="text" value="" label="Size of the moving window" help="This is the number of observations used for calculating the statistic. Each window will be a fixed size. If its an offset then this will be the time period of each window. Each window will be sized, based on the number of observations included in the time-period">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	149 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	150 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	151 <param argument="thresh" type="float" value="" label="Maximum total variance allowed per window" help="Maximum total variance allowed per window"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	152 <param argument="maxna" type="integer" optional="true" label="Maximum number of NaNs allowed in window" help="If more NaNs are present, the window is not flagged"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	153 <param argument="maxna_group" type="integer" optional="true" label="Same as `maxna` but for consecutive NaNs" help="Same as `maxna` but for consecutive NaNs"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	154 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	155 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	156 <when value="flagConstants">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	157 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	158 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	159 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	160 <param argument="thresh" type="float" value="" label="Maximum total change allowed per window" help="Maximum total change allowed per window"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	161 <param argument="window" type="text" value="" label="Size of the moving window" help="This determines the number of observations used for calculating the absolute change per window. Each window will either contain a fixed number of periods (integer defined window), or will have a fixed temporal extension (offset defined window)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	162 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	163 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	164 <param argument="min_periods" type="integer" value="2" optional="true" label="Minimum number of observations in window required to generate a flag" help="This can be used to exclude underpopulated offset defined windows from flagging. (Integer defined windows will always contain exactly window samples). Must be an integer greater or equal `2`, because a single value would always be considered constant. Defaults to `2`"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	165 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	166 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	167 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	168 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	169 <when value="curvefit">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	170 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	171 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	172 <option value="fitLowpassFilter">fitLowpassFilter: Fits the data using the butterworth filter</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	173 <option value="fitPolynomial">fitPolynomial: Fits a polynomial model to the data</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	174 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	175 <when value="fitLowpassFilter">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	176 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	177 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	178 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	179 <param argument="cutoff" type="text" value="" label="cutoff" help="The cutoff-frequency, either an offset freq string, or expressed in multiples of the sampling rate">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	180 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	181 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	182 <param argument="nyq" type="float" value="0.5" optional="true" label="The niquist-frequency" help="expressed in multiples if the sampling rate"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	183 <param argument="filter_order" type="integer" value="2" optional="true" label="filter_order" help=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	184 <param argument="fill_method" type="select" value="linear" optional="true" label="fill_method" help="Fill method to be applied on the data before filtering (butterfilter cant handle ''np.nan''). See documentation of pandas.Series.interpolate method for details on the methods associated with the different keywords">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	185 <option value="linear">linear</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	186 <option value="nearest">nearest</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	187 <option value="zero">zero</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	188 <option value="slinear">slinear</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	189 <option value="quadratic">quadratic</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	190 <option value="cubic">cubic</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	191 <option value="spline">spline</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	192 <option value="barycentric">barycentric</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	193 <option value="polynomial">polynomial</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	194 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	195 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	196 <when value="fitPolynomial">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	197 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	198 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	199 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	200 <param argument="window" type="text" value="" label="Size of the window you want to use for fitting" help="If an integer is passed, the size refers to the number of periods for every fitting window. If an offset string is passed, the size refers to the total temporal extension. The window will be centered around the vaule-to-be-fitted. For regularly sampled data always a odd number of periods will be used for the fit (periods-1 if periods is even)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	201 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	202 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	203 <param argument="order" type="integer" value="" label="Degree of the polynomial used for fitting" help="Degree of the polynomial used for fitting"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	204 <param argument="min_periods" type="integer" value="0" optional="true" label="min_periods" help="Minimum number of observations in a window required to perform the fit, otherwise NaNs will be assigned. If ``None``, `min_periods` defaults to 1 for integer windows and to the size of the window for offset based windows. Passing 0, disables the feature and will result in over-fitting for too sparse windows"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	205 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	206 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	207 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	208 <when value="drift">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	209 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	210 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	211 <option value="assignRegimeAnomaly">assignRegimeAnomaly: A function to detect values belonging to an anomalous regime regarding modelling</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	212 <option value="correctDrift">correctDrift: The function corrects drifting behavior</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	213 <option value="correctOffset">correctOffset: Parameters</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	214 <option value="correctRegimeAnomaly">correctRegimeAnomaly: Function fits the passed model to the different regimes in data[field] and tries to correct</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	215 <option value="flagDriftFromNorm">flagDriftFromNorm: Flags data that deviates from an avarage data course</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	216 <option value="flagDriftFromReference">flagDriftFromReference: Flags data that deviates from a reference course. Deviation is measured by a</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	217 <option value="flagRegimeAnomaly">flagRegimeAnomaly: Flags anomalous regimes regarding to modelling regimes of ``field``</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	218 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	219 <when value="assignRegimeAnomaly">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	220 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	221 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	222 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	223 <param argument="cluster_field" type="text" value="" label="Column in data, holding the cluster labels for the samples in field" help="(has to be indexed equal to field)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	224 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	225 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	226 <param argument="spread" type="float" value="" label="A threshold denoting the value level, up to wich clusters a agglomerated" help="A threshold denoting the value level, up to wich clusters a agglomerated"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	227 <param argument="method" type="select" value="single" optional="true" label="The linkage method for hierarchical (agglomerative) clustering of the variables" help="The linkage method for hierarchical (agglomerative) clustering of the variables">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	228 <option value="single">single</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	229 <option value="complete">complete</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	230 <option value="average">average</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	231 <option value="weighted">weighted</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	232 <option value="centroid">centroid</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	233 <option value="median">median</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	234 <option value="ward">ward</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	235 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	236 <param argument="metric" type="text" value="<function DriftMixin.<lambda> at 0x789a8308d800>" optional="true" label="A metric function for calculating the dissimilarity between 2 regimes" help="Defaults to the absolute difference in mean"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	237 <param argument="frac" type="float" value="0.5" optional="true" label="frac" help="The minimum percentage of samples, the normal group has to comprise to actually be the normal group. Must be in the closed interval `[0,1]`, otherwise a ValueError is raised"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	238 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	239 <when value="correctDrift">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	240 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	241 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	242 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	243 <param argument="maintenance_field" type="text" value="" label="Column holding the support-points information" help="The data is expected to have the following form: The index of the series represents the beginning of a maintenance event, wheras the values represent its endings">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	244 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	245 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	246 <conditional name="model_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	247 <param name="model_select_type" type="select" value="linear" label="A model function describing the drift behavior, that is to be corrected Model Type" help="Either use built-in exponential or linear drift model by passing a string, or pass a custom callable. The model function must always contain the keyword parameters 'origin' and 'target'. The starting parameter must always be the parameter, by wich the data is passed to the model. After the data parameter, there can occure an arbitrary number of model calibration arguments in the signature. See the Notes section for an extensive description">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	248 <option value="linear">Linear Model</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	249 <option value="exponential">Exponential Model</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	250 <option value="custom">Custom Callable</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	251 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	252 <when value="linear">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	253 <param name="model" type="hidden" value="linear" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	254 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	255 <when value="exponential">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	256 <param name="model" type="hidden" value="exponential" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	257 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	258 <when value="custom">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	259 <param argument="model" type="text" value="" label="A model function describing the drift behavior, that is to be corrected (Custom Callable Name)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	260 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	261 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	262 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	263 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	264 <param argument="cal_range" type="integer" value="5" optional="true" label="cal_range" help="Number of values to calculate the mean of, for obtaining the value level directly after and directly before a maintenance event. Needed for shift calibration"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	265 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	266 <when value="correctOffset">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	267 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	268 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	269 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	270 <param argument="max_jump" type="float" value="" label="max_jump" help="when searching for changepoints in mean - this is the threshold a mean difference in the sliding window search must exceed to trigger changepoint detection"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	271 <param argument="spread" type="float" value="" label="spread" help="threshold denoting the maximum, regimes are allowed to abolutely differ in their means to form the normal group of values"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	272 <param argument="window" type="text" value="" label="Size of the adjacent windows that are used to search for the mean changepoints" help="Size of the adjacent windows that are used to search for the mean changepoints">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	273 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	274 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	275 <param argument="min_periods" type="integer" value="" label="min_periods" help="Minimum number of periods a search window has to contain, for the result of the changepoint detection to be considered valid"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	276 <param argument="tolerance" type="text" optional="true" label="tolerance" help="If an offset string is passed, a data chunk of length `offset` right from the start and right before the end of any regime is ignored when calculating a regimes mean for data correcture. This is to account for the unrelyability of data near the changepoints of regimes"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	277 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	278 <when value="correctRegimeAnomaly">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	279 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	280 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	281 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	282 <param argument="cluster_field" type="text" value="" label="cluster_field" help="A string denoting the field in data, holding the cluster label for the data you want to correct">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	283 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	284 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	285 <param argument="model" type="text" value="" label="The model function to be fitted to the regimes" help="It must be a function of the form :math:`f(x, *p)`, where :math:`x` is the ``numpy.array`` holding the independent variables and :math:`p` are the model parameters that are to be obtained by fitting. Depending on the `x_date` parameter, independent variable x will either be the timestamps of every regime transformed to seconds from epoch, or it will be just seconds, counting the regimes length (Expects a function reference: (...).)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	286 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	287 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	288 <param argument="tolerance" type="text" optional="true" label="tolerance" help="If an offset string is passed, a data chunk of length `offset` right at the start and right at the end is ignored when fitting the model. This is to account for the unreliability of data near the changepoints of regimes. Defaults to None"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	289 <param argument="epoch" type="boolean" label="epoch" help="If True, use seconds from epoch as x input to the model func, instead of seconds from regime start " checked="false" truevalue="epoch" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	290 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	291 <when value="flagDriftFromNorm">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	292 <repeat name="field_repeat" title="Field(s)" min="1">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	293 <param argument="field" type="text" value="" label="Name for field" help="Name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	294 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	295 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	296 </repeat>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	297 <param argument="window" type="text" value="" label="Frequency, that split the data in chunks" help="Frequency, that split the data in chunks">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	298 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	299 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	300 <param argument="spread" type="float" value="" label="Maximum spread allowed in the group of normal data" help="See Notes section for more details"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	301 <param argument="frac" type="float" value="0.5" optional="true" label="Fraction defining the normal group" help="Use a value from the interval [0,1]. The higher the value, the more stable the algorithm will be. For values below 0.5 the results are undefined"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	302 <param argument="metric" type="text" value="<function cityblock at 0x789a8308c9a0>" optional="true" label="metric" help="default cityblock Distance function that takes two arrays as input and returns a scalar float. This value is interpreted as the distance of the two input arrays. Defaults to the `averaged manhattan metric` (see Notes)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	303 <param argument="method" type="select" value="single" optional="true" label="Linkage method used for hierarchical (agglomerative) clustering of the data" help="`method` is directly passed to ``scipy.hierarchy.linkage``. See its documentation [1] for more details. For a general introduction on hierarchical clustering see [2]">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	304 <option value="single">single</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	305 <option value="complete">complete</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	306 <option value="average">average</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	307 <option value="weighted">weighted</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	308 <option value="centroid">centroid</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	309 <option value="median">median</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	310 <option value="ward">ward</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	311 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	312 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	313 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	314 <when value="flagDriftFromReference">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	315 <repeat name="field_repeat" title="Field(s)" min="1">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	316 <param argument="field" type="text" value="" label="Name for field" help="Name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	317 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	318 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	319 </repeat>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	320 <param argument="reference" type="text" value="" label="Reference variable, the deviation is calculated from" help="Reference variable, the deviation is calculated from">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	321 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	322 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	323 <param argument="freq" type="text" value="" label="Frequency, that split the data in chunks" help="Frequency, that split the data in chunks">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	324 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	325 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	326 <param argument="thresh" type="float" value="" label="Maximum deviation from reference" help="Maximum deviation from reference"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	327 <param argument="metric" type="text" value="<function cityblock at 0x789a8308c9a0>" optional="true" label="metric" help="default cityblock Distance function. Takes two arrays as input and returns a scalar float. This value is interpreted as the mutual distance of the two input arrays. Defaults to the `averaged manhattan metric` (see Notes)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	328 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	329 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	330 <when value="flagRegimeAnomaly">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	331 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	332 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	333 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	334 <param argument="cluster_field" type="text" value="" label="Column in data, holding the cluster labels for the samples in field" help="(has to be indexed equal to field)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	335 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	336 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	337 <param argument="spread" type="float" value="" label="A threshold denoting the value level, up to wich clusters a agglomerated" help="A threshold denoting the value level, up to wich clusters a agglomerated"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	338 <param argument="method" type="select" value="single" optional="true" label="The linkage method for hierarchical (agglomerative) clustering of the variables" help="The linkage method for hierarchical (agglomerative) clustering of the variables">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	339 <option value="single">single</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	340 <option value="complete">complete</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	341 <option value="average">average</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	342 <option value="weighted">weighted</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	343 <option value="centroid">centroid</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	344 <option value="median">median</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	345 <option value="ward">ward</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	346 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	347 <param argument="metric" type="text" value="<function DriftMixin.<lambda> at 0x789a8308d6c0>" optional="true" label="A metric function for calculating the dissimilarity between 2 regimes" help="Defaults to the absolute difference in mean"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	348 <param argument="frac" type="float" value="0.5" optional="true" label="frac" help="The minimum percentage of samples, the normal group has to comprise to actually be the normal group. Must be in the closed interval `[0,1]`, otherwise a ValueError is raised"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	349 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	350 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	351 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	352 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	353 <when value="flagtools">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	354 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	355 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	356 <option value="andGroup">andGroup: Flag all values, if all the given ``field`` values are already flagged</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	357 <option value="clearFlags">clearFlags: Assign UNFLAGGED value to all periods in field</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	358 <option value="flagDummy">flagDummy: Function does nothing but returning data and flags</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	359 <option value="flagManual">flagManual: Include flags listed in external data</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	360 <option value="flagUnflagged">flagUnflagged: Function sets a flag at all unflagged positions</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	361 <option value="forceFlags">forceFlags: Set whole column to a flag value</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	362 <option value="orGroup">orGroup: Flag all values, if at least one of the given ``field`` values is already flagged</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	363 <option value="propagateFlags">propagateFlags: Flag values before or after flags set by the last test</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	364 <option value="transferFlags">transferFlags: Transfer Flags of one variable to another</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	365 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	366 <when value="andGroup">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	367 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	368 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	369 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	370 <param argument="group" type="text" optional="true" label="A collection of ``SaQC`` objects" help="Flag checks are performed on all ``SaQC`` objects based on the variables specified in ``field``. Whenever all monitored variables are flagged, the associated timestamps will receive a flag"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	371 <param argument="target" type="text" optional="true" label="Target" help="The name of the variable to process."/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	372 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	373 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	374 <when value="clearFlags">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	375 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	376 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	377 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	378 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	379 <when value="flagDummy">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	380 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	381 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	382 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	383 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	384 <when value="flagManual">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	385 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	386 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	387 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	388 <param argument="mdata" type="text" value="" label="Determines which values or intervals will be flagged" help="Supported input types: * ``pd.Series``: Needs a datetime index and values of type: - datetime, for `method` values `` right-closed ``, `` left-closed ``, `` closed `` - or any scalar, for `method` values `` plain ``, `` ontime `` * ``str``: Variable holding the manual flag information. * ``pd.DataFrame``, ``DictOfSeries``: Need to provide a ``pd.Series`` with column name `field`. * ``list``, ``np.ndarray``: Only supported with `method` value `` plain `` and `mformat` value `` mflag ``">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	389 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	390 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	391 <param argument="method" type="select" value="left-open" optional="true" label="method" help="Defines how `mdata` is projected to data: * `` plain ``: `mdata` must have the same length as `field`, flags are set, where the values in `mdata` equal `mflag`. * `` ontime ``: Expects datetime indexed `mdata` (types ``pd.Series``, ``pd.DataFrame``, ``DictOfSeries``). Flags are set, where the values in `mdata` equal `mflag` and the indices of `field` and `mdata` match. * `` right-open ``: Expects datetime indexed `mdata`, which will be interpreted as a number of time intervals ``t_1, t_2``. Flags are set to all timestamps ``t`` of `field` with ``t_1 = t t_2``. * `` left-open ``: like `` right-open ``, but the interval covers all ``t`` with ``t_1 t = t_2``. * `` closed ``: like `` right-open ``, but the interval now covers all ``t`` with ``t_1 = t = t_2``">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	392 <option value="left-open">left-open</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	393 <option value="right-open">right-open</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	394 <option value="closed">closed</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	395 <option value="plain">plain</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	396 <option value="ontime">ontime</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	397 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	398 <param argument="mformat" type="select" value="start-end" optional="true" label="mformat" help="Controls the interval definition in `mdata` (see examples): * `` start-end ``: expects datetime indexed `mdata` (types ``pd.Series``, ``pd.DataFrame``, ``DictOfSeries``) with values of type datetime. Each index-value pair is interpreted as an interval to flag, the index defines the left bound, the respective value the right bound. * `` mflag ``: - `mdata` of type ``pd.Series``, ``pd.DataFrame``, ``DictOfSeries``: Two successive index values ``i_1, i_2`` will be interpreted as an interval ``t_1, t_2`` to flag, if the value of ``t_1`` equals `mflag` - `mdata` of type ``list``, ``np.ndarray``: Flags all `field` where `mdata` euqals `mflag`">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	399 <option value="start-end">start-end</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	400 <option value="mflag">mflag</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	401 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	402 <param argument="mflag" type="text" optional="true" label="mflag" help="Value in `mdata` indicating that a flag should be set at the respective position, timestamp or interval. Ignored if `mformat` is set to `` start-end ``"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	403 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	404 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	405 <when value="flagUnflagged">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	406 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	407 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	408 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	409 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	410 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	411 <when value="forceFlags">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	412 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	413 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	414 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	415 <param argument="flag" type="float" value="255.0" optional="true" label="flag" help=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	416 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	417 <when value="orGroup">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	418 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	419 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	420 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	421 <param argument="group" type="text" optional="true" label="A collection of ``SaQC`` objects" help="Flag checks are performed on all ``SaQC`` objects based on the variables specified in `field`. Whenever any of monitored variables is flagged, the associated timestamps will receive a flag"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	422 <param argument="target" type="text" optional="true" label="Target" help="The name of the variable to process."/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	423 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	424 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	425 <when value="propagateFlags">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	426 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	427 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	428 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	429 <param argument="window" type="text" value="" label="Size of the repetition window" help="An integer defines the exact number of repetitions, strings are interpreted as time offsets to fill with">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	430 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	431 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	432 <param argument="method" type="select" value="ffill" optional="true" label="Direction of repetetion" help="With ffill the subsequent values receive the flag to repeat, with bfill the previous values">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	433 <option value="ffill">ffill</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	434 <option value="bfill">bfill</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	435 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	436 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	437 <param argument="dfilter" type="float" value="-inf" optional="true" label="dfilter" help="Any, optional Defines which observations will be masked based on the already existing flags. Any data point with a flag equal or worse to this threshold will be passed as ``NaN`` to the function. Defaults to the ``DFILTER_ALL`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	438 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	439 <when value="transferFlags">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	440 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	441 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	442 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	443 <param argument="target" type="text" optional="true" label="Target" help="The name of the variable to process."/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	444 <param argument="squeeze" type="boolean" label="squeeze" help="Squeeze the history into a single column if ``True``, function specific flag information is lost" checked="false" truevalue="squeeze" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	445 <param argument="overwrite" type="boolean" label="Overwrite existing flags if ``True``" help="Overwrite existing flags if ``True``" checked="false" truevalue="overwrite" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	446 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	447 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	448 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	449 <when value="generic">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	450 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	451 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	452 <option value="flagGeneric">flagGeneric: Flag data based on a given function</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	453 <option value="processGeneric">processGeneric: Generate/process data with user defined functions</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	454 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	455 <when value="flagGeneric">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	456 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	457 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	458 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	459 <param argument="func" type="text" value="" label="Function to call" help="The function needs to accept the same number of arguments (of type pandas.Series) as variables given in ``field`` and return an iterable of array-like objects of data type ``bool`` with the same length as ``target`` (Expects a function reference: (...).)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	460 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	461 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	462 <param argument="target" type="text" optional="true" label="Target" help="The name of the variable to process."/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	463 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	464 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	465 <when value="processGeneric">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	466 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	467 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	468 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	469 <param argument="func" type="text" value="" label="Function to call on the variables given in ``field``" help="The return value will be written to ``target`` or ``field`` if the former is not given. This implies, that the function needs to accept the same number of arguments (of type pandas.Series) as variables given in ``field`` and should return an iterable of array-like objects with the same number of elements as given in ``target`` (or ``field`` if ``target`` is not specified) (Expects a function reference: (...).)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	470 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	471 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	472 <param argument="target" type="text" optional="true" label="Target" help="The name of the variable to process."/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	473 <param argument="dfilter" type="float" value="-inf" optional="true" label="dfilter" help="Any, optional Defines which observations will be masked based on the already existing flags. Any data point with a flag equal or worse to this threshold will be passed as ``NaN`` to the function. Defaults to the ``DFILTER_ALL`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	474 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	475 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	476 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	477 <when value="interpolation">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	478 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	479 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	480 <option value="align">align: Convert time series to specified frequency. Values affected by</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	481 <option value="interpolateByRolling">interpolateByRolling: Replace NaN by the aggregation result of the surrounding window</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	482 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	483 <when value="align">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	484 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	485 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	486 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	487 <param argument="freq" type="text" value="" label="Target frequency" help="Target frequency">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	488 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	489 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	490 <param argument="method" type="text" value="time" optional="true" label="Interpolation technique to use" help="One of: * ``'nshift'``: Shift grid points to the nearest time stamp in the range = +/- 0.5 * ``freq``. * ``'bshift'``: Shift grid points to the first succeeding time stamp (if any). * ``'fshift'``: Shift grid points to the last preceeding time stamp (if any). * ``'linear'``: Ignore the index and treat the values as equally spaced. * ``'time'``, ``'index'``, ``'values'``: Use the actual numerical values of the index. * ``'pad'``: Fill in NaNs using existing values. * ``'spline'``, ``'polynomial'``: Passed to ``scipy.interpolate.interp1d``. These methods use the numerical values of the index. An ``order`` must be specified, e.g. ``qc.interpolate(method='polynomial', order=5)``. * ``'nearest'``, ``'zero'``, ``'slinear'``, ``'quadratic'``, ``'cubic'``, ``'barycentric'``: Passed to ``scipy.interpolate.interp1d``. These methods use the numerical values of the index. * ``'krogh'``, ``'spline'``, ``'pchip'``, ``'akima'``, ``'cubicspline'``: Wrappers around the SciPy interpolation methods of similar names. * ``'from_derivatives'``: Refers to ``scipy.interpolate.BPoly.from_derivatives``"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	491 <param argument="order" type="integer" value="2" optional="true" label="order" help="Order of the interpolation method, ignored if not supported by the chosen ``method``"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	492 <param argument="overwrite" type="boolean" label="If set to `True`, existing flags will be cleared" help="If set to `True`, existing flags will be cleared" checked="false" truevalue="overwrite" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	493 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	494 <when value="interpolateByRolling">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	495 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	496 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	497 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	498 <param argument="window" type="text" value="" label="The size of the window, the aggregation is computed from" help="An integer define the number of periods to be used, a string is interpreted as an offset. ( see `pandas.rolling` for more information). Integer windows may result in screwed aggregations if called on none-harmonized or irregular data">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	499 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	500 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	501 <param argument="func" type="text" value="median" optional="true" label="func" help="default median The function used for aggregation"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	502 <param argument="center" type="boolean" label="Center the window around the value" help="Can only be used with integer windows, otherwise it is silently ignored" checked="true" truevalue="center" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	503 <param argument="min_periods" type="integer" value="0" optional="true" label="min_periods" help="Minimum number of valid (not np.nan) values that have to be available in a window for its aggregation to be computed"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	504 <param argument="flag" type="float" value="-inf" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	505 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	506 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	507 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	508 <when value="noise">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	509 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	510 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	511 <option value="flagByScatterLowpass">flagByScatterLowpass: Flag data chunks of length ``window`` dependent on the data deviation</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	512 <option value="flagByStatLowPass">flagByStatLowPass: Flag data chunks of length ``window`` dependent on the data deviation</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	513 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	514 <when value="flagByScatterLowpass">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	515 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	516 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	517 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	518 <param argument="window" type="text" value="" label="window" help="Window (i.e. chunk) size">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	519 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	520 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	521 <param argument="thresh" type="float" value="" label="thresh" help="Threshold. A given chunk is flagged, if the return value of ``func`` excceeds ``thresh``"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	522 <param argument="func" type="text" value="std" optional="true" label="func" help="Either a string, determining the aggregation function applied on every chunk: * 'std': standard deviation * 'var': variance * 'mad': median absolute deviation Or a Callable, mapping 1 dimensional array likes onto scalars"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	523 <param argument="sub_window" type="text" optional="true" label="sub_window" help="Window size of sub chunks, that are additionally tested for exceeding ``sub_thresh`` with respect to ``func`` (Pandas timedelta string or offset, e.g., '1D', '2H30M')"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	524 <param argument="sub_thresh" type="float" optional="true" label="sub_thresh" help="Threshold. A given sub chunk is flagged, if the return value of ``func` excceeds ``sub_thresh``"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	525 <param argument="min_periods" type="integer" optional="true" label="Minimum number of values needed in a chunk to perfom the test" help="Ignored if ``window`` is an integer"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	526 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	527 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	528 <when value="flagByStatLowPass">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	529 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	530 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	531 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	532 <param argument="window" type="text" value="" label="window" help="">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	533 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	534 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	535 <param argument="thresh" type="float" value="" label="thresh" help=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	536 <param argument="func" type="text" value="std" optional="true" label="func" help="Either a String value, determining the aggregation function applied on every chunk. * 'std': standard deviation * 'var': variance * 'mad': median absolute deviation Or a Callable function mapping 1 dimensional arraylikes onto scalars. window : Window (i.e. chunk) size. thresh : Threshold. A given chunk is flagged, if the return value of ``func`` excceeds ``thresh``. sub_window : Window size of sub chunks, that are additionally tested for exceeding ``sub_thresh`` with respect to ``func``. sub_thresh : Threshold. A given sub chunk is flagged, if the return value of ``func` excceeds ``sub_thresh``. min_periods : Minimum number of values needed in a chunk to perfom the test. Ignored if ``window`` is an integer"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	537 <param argument="sub_window" type="text" optional="true" label="sub_window" help=" (Pandas timedelta string or offset, e.g., '1D', '2H30M')"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	538 <param argument="sub_thresh" type="float" optional="true" label="sub_thresh" help=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	539 <param argument="min_periods" type="integer" optional="true" label="min_periods" help=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	540 <param argument="flag" type="float" value="255.0" optional="true" label="flag" help=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	541 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	542 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	543 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	544 <when value="outliers">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	545 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	546 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	547 <option value="flagByGrubbs">flagByGrubbs: Flag outliers using the Grubbs algorithm</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	548 <option value="flagByStray">flagByStray: Flag outliers in 1-dimensional (score) data using the STRAY Algorithm</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	549 <option value="flagLOF">flagLOF: Flag values where the Local Outlier Factor (LOF) exceeds cutoff</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	550 <option value="flagMAD">flagMAD: Flag outiers using the modified Z-score outlier detection method</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	551 <option value="flagMVScores">flagMVScores: The algorithm implements a 3-step outlier detection procedure for</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	552 <option value="flagOffset">flagOffset: A basic outlier test that works on regularly and irregularly sampled data</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	553 <option value="flagRaise">flagRaise: The function flags raises and drops in value courses, that exceed a certain threshold within a certain timespan</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	554 <option value="flagRange">flagRange: Function flags values exceeding the closed</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	555 <option value="flagUniLOF">flagUniLOF: Flag univariate Local Outlier Factor (LOF) exceeding cutoff</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	556 <option value="flagZScore">flagZScore: Flag data where its (rolling) Zscore exceeds a threshold</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	557 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	558 <when value="flagByGrubbs">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	559 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	560 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	561 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	562 <param argument="window" type="text" value="" label="Size of the testing window" help="If an integer, the fixed number of observations used for each window. If an offset string the time period of each window">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	563 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	564 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	565 <param argument="alpha" type="float" value="0.05" optional="true" label="Level of significance, the grubbs test is to be performed at" help="Must be between 0 and 1"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	566 <param argument="min_periods" type="integer" value="8" optional="true" label="min_periods" help="Minimum number of values needed in a `window` in order to perform the grubs test. Ignored if `window` is an integer"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	567 <param argument="pedantic" type="boolean" label="If ``True``, every value gets checked twice" help="First in the initial rolling `window` and second in a rolling window that is lagging by `window` / 2. Recommended to avoid false positives at the window edges. Ignored if `window` is an offset string" checked="false" truevalue="pedantic" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	568 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	569 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	570 <when value="flagByStray">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	571 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	572 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	573 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	574 <conditional name="window_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	575 <param name="window_select_type" type="select" value="none" label="window Input Mode" help="Determines the segmentation of the data into partitions, the kNN algorithm is applied onto individually. * ``None``: Apply Scoring on whole data set at once * ``int``: Apply scoring on successive data chunks of periods with the given length. Must be greater than 0. * offset String : Apply scoring on successive partitions of temporal extension matching the passed offset string">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	576 <option value="number">Number</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	577 <option value="timedelta">Timedelta</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	578 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	579 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	580 <when value="number">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	581 <param argument="window" type="integer" value="" label="window (as number)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	582 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	583 <when value="timedelta">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	584 <param argument="window" type="text" value="" label="window (as timedelta string)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	585 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	586 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	587 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	588 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	589 <param name="window" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	590 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	591 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	592 <param argument="min_periods" type="integer" value="11" optional="true" label="min_periods" help="Minimum number of periods per partition that have to be present for a valid outlier detection to be made in this partition"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	593 <param argument="iter_start" type="float" value="0.5" optional="true" label="iter_start" help="Float in ``[0, 1]`` that determines which percentage of data is considered normal . ``0.5`` results in the stray algorithm to search only the upper 50% of the scores for the cut off point. (See reference section for more information)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	594 <param argument="alpha" type="float" value="0.05" optional="true" label="alpha" help="Level of significance by which it is tested, if a score might be drawn from another distribution than the majority of the data"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	595 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	596 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	597 <when value="flagLOF">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	598 <repeat name="field_repeat" title="Field(s)" min="1">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	599 <param argument="field" type="text" value="" label="Name for field" help="Name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	600 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	601 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	602 </repeat>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	603 <param argument="n" type="integer" value="20" optional="true" label="Number of neighbors to be included into the LOF calculation" help="Defaults to ``20``, which is a value found to be suitable in the literature. * `n` determines the locality of an observation (its `n` nearest neighbors) and sets the upper limit to the number of values in outlier clusters (i.e. consecutive outliers). Outlier clusters of size greater than `n`/2 may not be detected reliably. * The larger `n`, the lesser the algorithm's sensitivity to local outliers and small or singleton outliers points. Higher values greatly increase numerical costs"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	604 <conditional name="thresh_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	605 <param name="thresh_select_type" type="select" value="float" label="The threshold for flagging the calculated LOF Mode" help="A LOF of around ``1`` is considered normal and most likely corresponds to inlier points. * The automatic threshing introduced with the publication of the algorithm defaults to ``1.5``. * In this implementation, `thresh` defaults (``'auto'``) to flagging the scores with a modified 3-sigma rule">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	606 <option value="auto">Automatic ('auto')</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	607 <option value="float">Specific Value (float)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	608 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	609 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	610 <when value="auto">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	611 <param name="thresh" type="hidden" value="auto" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	612 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	613 <when value="float">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	614 <param argument="thresh" type="float" value="1.5" label="The threshold for flagging the calculated LOF (float value)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	615 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	616 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	617 <param name="thresh" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	618 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	619 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	620 <param argument="algorithm" type="select" value="ball_tree" optional="true" label="Algorithm used for calculating the `n`-nearest neighbors" help="Algorithm used for calculating the `n`-nearest neighbors">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	621 <option value="ball_tree">ball_tree</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	622 <option value="kd_tree">kd_tree</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	623 <option value="brute">brute</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	624 <option value="auto">auto</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	625 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	626 <param argument="p" type="integer" value="1" optional="true" label="p" help="Degree of the metric ( Minkowski ), according to which the distance to neighbors is determined. Most important values are: * ``1`` - Manhattan Metric * ``2`` - Euclidian Metric"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	627 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	628 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	629 <when value="flagMAD">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	630 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	631 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	632 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	633 <conditional name="window_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	634 <param name="window_select_type" type="select" value="none" label="Size of the window Input Mode" help="Either given as an Offset String, denoting the window's temporal extension or as an integer, denoting the window's number of periods. ``NaN`` also count as periods. If ``None``, all data points share the same scoring window, which than equals the whole data">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	635 <option value="number">Number</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	636 <option value="timedelta">Timedelta</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	637 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	638 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	639 <when value="number">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	640 <param argument="window" type="integer" value="" label="Size of the window (as number)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	641 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	642 <when value="timedelta">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	643 <param argument="window" type="text" value="" label="Size of the window (as timedelta string)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	644 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	645 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	646 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	647 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	648 <param name="window" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	649 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	650 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	651 <param argument="z" type="float" value="3.5" optional="true" label="The value the Z-score is tested against" help="Defaulting to ``3.5`` (Recommendation of [1])"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	652 <param argument="min_residuals" type="integer" optional="true" label="min_residuals" help=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	653 <param argument="min_periods" type="integer" optional="true" label="min_periods" help="Minimum number of valid meassurements in a scoring window, to consider the resulting score valid"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	654 <param argument="center" type="boolean" label="Weather or not to center the target value in the scoring window" help="If ``False``, the target value is the last value in the window" checked="false" truevalue="center" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	655 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	656 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	657 <when value="flagMVScores">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	658 <repeat name="field_repeat" title="Field(s)" min="1">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	659 <param argument="field" type="text" value="" label="Name for field" help="Name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	660 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	661 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	662 </repeat>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	663 <param argument="trafo" type="text" value="<function OutliersMixin.<lambda> at 0x789a830b5c60>" optional="true" label="Transformation to be applied onto every column before scoring" help="For more fine-grained control, the data could also be transformed before :py:meth:`~saqc.SaQC.flagMVScores` is called"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	664 <param argument="alpha" type="float" value="0.05" optional="true" label="alpha" help="Level of significance by which it is tested, if an observations score might be drawn from another distribution than the majority of the data"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	665 <param argument="n" type="integer" value="10" optional="true" label="Number of neighbors included in the scoring process for every datapoint" help="Number of neighbors included in the scoring process for every datapoint"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	666 <param argument="func" type="text" value="sum" optional="true" label="func" help="Function that aggregates a value's k-smallest distances, returning a scalar score"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	667 <param argument="iter_start" type="float" value="0.5" optional="true" label="iter_start" help="Value in ``[0,1]`` that determines which percentage of data is considered normal . 0.5 results in the threshing algorithm to search only the upper 50% of the scores for the cut-off point. (See reference section for more information)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	668 <conditional name="window_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	669 <param name="window_select_type" type="select" value="none" label="Only effective if `threshing` is set to ``'stray'`` Input Mode" help="Determines the size of the data partitions, the data is decomposed into. Each partition is checked seperately for outliers. Either given as an Offset String, denoting the windows temporal extension or as an integer, denoting the windows number of periods. ``NaN`` also count as periods. If ``None``, all data points share the same scoring window, which than equals the whole data">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	670 <option value="number">Number</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	671 <option value="timedelta">Timedelta</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	672 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	673 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	674 <when value="number">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	675 <param argument="window" type="integer" value="" label="Only effective if `threshing` is set to ``'stray'`` (as number)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	676 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	677 <when value="timedelta">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	678 <param argument="window" type="text" value="" label="Only effective if `threshing` is set to ``'stray'`` (as timedelta string)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	679 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	680 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	681 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	682 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	683 <param name="window" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	684 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	685 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	686 <param argument="min_periods" type="integer" value="11" optional="true" label="min_periods" help="Only effective if `threshing` is set to ``'stray'`` and `partition` is an integer. Minimum number of periods per `partition` that have to be present for a valid outlier detection to be made in this partition"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	687 <param argument="stray_range" type="text" optional="true" label="stray_range" help="If not ``None``, it is tried to reduce the stray result onto single outlier components of the input `field`. The offset string denotes the range of the temporal surrounding to include into the MAD testing while trying to reduce flags"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	688 <param argument="drop_flagged" type="boolean" label="Only effective when `stray_range` is not ``None``" help="Whether or not to drop flagged values from the temporal surroundings" checked="false" truevalue="drop_flagged" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	689 <param argument="thresh" type="float" value="3.5" optional="true" label="Only effective when `stray_range` is not ``None``" help="The 'critical' value, controlling wheather the MAD score is considered referring to an outlier or not. Higher values result in less rigid flagging. The default value is widely considered apropriate in the literature"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	690 <param argument="min_periods_r" type="integer" value="1" optional="true" label="Only effective when `stray_range` is not ``None``" help="Minimum number of measurements necessary in an interval to actually perform the reduction step"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	691 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	692 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	693 <when value="flagOffset">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	694 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	695 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	696 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	697 <param argument="tolerance" type="float" value="" label="tolerance" help="Maximum difference allowed between the value, directly preceding and the value directly succeeding an offset to trigger flagging of the offsetting values. See condition (4)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	698 <param argument="window" type="text" value="" label="window" help="Maximum length allowed for offset value courses, to trigger flagging of the offsetting values. See condition (5). Integer defined window length are only allowed for regularly sampled timeseries">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	699 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	700 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	701 <param argument="thresh" type="float" optional="true" label="thresh" help="Minimum difference between a value and its successors, to consider the successors an anomalous offset group. See condition (1). If ``None``, condition (1) is not tested"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	702 <param argument="thresh_relative" type="float" optional="true" label="thresh_relative" help="Minimum relative change between a value and its successors, to consider the successors an anomalous offset group. See condition (2). If ``None``, condition (2) is not tested"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	703 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	704 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	705 <when value="flagRaise">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	706 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	707 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	708 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	709 <param argument="thresh" type="float" value="" label="thresh" help="The threshold, for the total rise (`thresh` `` 0``), or total drop (`thresh` `` 0``), value courses must not exceed within a timespan of length `raise_window`"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	710 <param argument="raise_window" type="text" value="" label="raise_window" help="An offset string, determining the timespan, the rise/drop thresholding refers to. Window is inclusively defined">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	711 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	712 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	713 <param argument="freq" type="text" value="" label="freq" help="An offset string, determining the frequency, the timeseries to flag is supposed to be sampled at. The window is inclusively defined">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	714 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	715 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	716 <param argument="average_window" type="text" optional="true" label="See condition (2) of the description given in the Notes" help="Window is inclusively defined, defaults to 1.5 times the size of `raise_window`"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	717 <param argument="raise_factor" type="float" value="2.0" optional="true" label="See condition (2)" help="See condition (2)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	718 <param argument="slope" type="float" optional="true" label="See condition (3)" help="See condition (3)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	719 <param argument="weight" type="float" value="0.8" optional="true" label="See condition (3)" help="See condition (3)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	720 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	721 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	722 <when value="flagRange">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	723 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	724 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	725 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	726 <param argument="min" type="float" value="-inf" optional="true" label="Lower bound for valid data" help="Lower bound for valid data"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	727 <param argument="max" type="float" value="inf" optional="true" label="Upper bound for valid data" help="Upper bound for valid data"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	728 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	729 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	730 <when value="flagUniLOF">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	731 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	732 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	733 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	734 <param argument="n" type="integer" value="20" optional="true" label="Number of periods to be included into the LOF calculation" help="Defaults to `20`, which is a value found to be suitable in the literature. * `n` determines the locality of an observation (its `n` nearest neighbors) and sets the upper limit to the number of values in an outlier clusters (i.e. consecutive outliers). Outlier clusters of size greater than `n`/2 may not be detected reliably. * The larger `n`, the lesser the algorithm's sensitivity to local outliers and small or singleton outlier points. Higher values greatly increase numerical costs"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	735 <conditional name="thresh_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	736 <param name="thresh_select_type" type="select" value="float" label="The threshold for flagging the calculated LOF Mode" help="A LOF of around ``1`` is considered normal and most likely corresponds to inlier points. This parameter is considered the main calibration parameter of the algorithm. * The threshing defaults to ``1.5``, wich is the default value found to be suitable in the literature. * ``'auto'`` enables flagging the scores with a modified 3-sigma rule, resulting in a thresh around ``4``, which usually greatly mitigates overflagging compared to the literature recommendation, but often is too high. * sensitive range for the parameter may be ``[1,15]``, assuming default settings for the other parameters">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	737 <option value="auto">Automatic ('auto')</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	738 <option value="float">Specific Value (float)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	739 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	740 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	741 <when value="auto">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	742 <param name="thresh" type="hidden" value="auto" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	743 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	744 <when value="float">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	745 <param argument="thresh" type="float" value="1.5" label="The threshold for flagging the calculated LOF (float value)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	746 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	747 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	748 <param name="thresh" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	749 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	750 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	751 <param argument="algorithm" type="select" value="ball_tree" optional="true" label="algorithm" help="Algorithm used for calculating the `n`-nearest neighbors needed for LOF calculation">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	752 <option value="ball_tree">ball_tree</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	753 <option value="kd_tree">kd_tree</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	754 <option value="brute">brute</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	755 <option value="auto">auto</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	756 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	757 <param argument="p" type="integer" value="1" optional="true" label="p" help="Degree of the metric ( Minkowski ), according to which distance to neighbors is determined. Most important values are: * ``1`` - Manhatten Metric * ``2`` - Euclidian Metric"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	758 <conditional name="density_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	759 <param name="density_select_type" type="select" value="auto" label="How to calculate the temporal distance/density for the variable to flag Mode" help="* ``'auto'`` - introduces linear density with an increment equal to the median of the absolute diff of the variable to flag. * ``float`` - introduces linear density with an increment equal to `density`">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	760 <option value="auto">Automatic ('auto')</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	761 <option value="float">Specific Value (float)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	762 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	763 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	764 <when value="auto">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	765 <param name="density" type="hidden" value="auto" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	766 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	767 <when value="float">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	768 <param argument="density" type="float" value="" label="How to calculate the temporal distance/density for the variable to flag (float value)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	769 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	770 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	771 <param name="density" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	772 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	773 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	774 <param argument="fill_na" type="boolean" label="If True, NaNs in the data are filled with a linear interpolation" help="If True, NaNs in the data are filled with a linear interpolation" checked="true" truevalue="fill_na" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	775 <param argument="slope_correct" type="boolean" label="slope_correct" help="if True, a correction is applied, that removes outlier cluster that actually just seem to be steep slopes" checked="true" truevalue="slope_correct" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	776 <param argument="min_offset" type="float" optional="true" label="min_offset" help="If set, only those outlier cluster will be flagged, that are preceeded and succeeeded by sufficiently large value jumps . Defaults to estimating the sufficient value jumps from the median over the absolute step sizes between data points"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	777 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	778 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	779 <when value="flagZScore">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	780 <repeat name="field_repeat" title="Field(s)" min="1">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	781 <param argument="field" type="text" value="" label="Name for field" help="Name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	782 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	783 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	784 </repeat>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	785 <param argument="method" type="select" value="standard" optional="true" label="method" help="Which method to use for ZScoring: * ` standard `: standard Zscoring, using mean for the expectation and standard deviation (std) as scaling factor * ` modified `: modified Zscoring, using median as the expectation and median absolute deviation (MAD) as the scaling Factor See notes section for detailed scoring formula">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	786 <option value="standard">standard</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	787 <option value="modified">modified</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	788 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	789 <conditional name="window_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	790 <param name="window_select_type" type="select" value="none" label="Size of the window Input Mode" help="Either determined via an offset string, denoting the windows temporal extension or by an integer, denoting the windows number of periods. ``NaN`` also count as periods. If ``None`` is passed, all data points share the same scoring window, which than equals the whole data">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	791 <option value="number">Number</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	792 <option value="timedelta">Timedelta</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	793 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	794 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	795 <when value="number">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	796 <param argument="window" type="integer" value="" label="Size of the window (as number)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	797 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	798 <when value="timedelta">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	799 <param argument="window" type="text" value="" label="Size of the window (as timedelta string)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	800 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	801 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	802 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	803 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	804 <param name="window" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	805 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	806 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	807 <param argument="thresh" type="float" value="3" optional="true" label="thresh" help="Cutoff level for the Zscores, above which associated points are marked as outliers"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	808 <param argument="min_residuals" type="integer" optional="true" label="Minimum residual value points must have to be considered outliers" help="Minimum residual value points must have to be considered outliers"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	809 <param argument="min_periods" type="integer" optional="true" label="min_periods" help="Minimum number of valid meassurements in a scoring window, to consider the resulting score valid"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	810 <param argument="center" type="boolean" label="Weather or not to center the target value in the scoring window" help="If ``False``, the target value is the last value in the window" checked="true" truevalue="center" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	811 <param argument="axis" type="integer" value="0" optional="true" label="axis" help="Along which axis to calculate the scoring statistics: * `0` (default) - calculate statistics along time axis * `1` - calculate statistics over multiple variables See Notes section for a visual clarification of the workings of `axis` and `window`"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	812 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	813 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	814 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	815 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	816 <when value="pattern">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	817 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	818 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	819 <option value="flagPatternByDTW">flagPatternByDTW: Pattern Recognition via Dynamic Time Warping</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	820 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	821 <when value="flagPatternByDTW">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	822 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	823 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	824 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	825 <param argument="reference" type="text" value="" label="The name in `data` which holds the pattern" help="The pattern must not have NaNs, have a datetime index and must not be empty">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	826 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	827 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	828 <param argument="max_distance" type="float" value="0.0" optional="true" label="max_distance" help="Maximum dtw-distance between chunk and pattern, if the distance is lower than ``max_distance`` the data gets flagged. With default, ``0.0``, only exact matches are flagged"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	829 <param argument="normalize" type="boolean" label="If `False`, return unmodified distances" help="If `True`, normalize distances by the number of observations of the reference. This helps to make it easier to find a good cutoff threshold for further processing. The distances then refer to the mean distance per datapoint, expressed in the datas units" checked="true" truevalue="normalize" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	830 <param argument="plot" type="boolean" label="plot" help="Show a calibration plot, which can be quite helpful to find the right threshold for `max_distance`. It works best with `normalize=True`. Do not use in automatic setups / pipelines. The plot show three lines: - data: the data the function was called on - distances: the calculated distances by the algorithm - indicator: have to distinct levels: `0` and the value of `max_distance`. If `max_distance` is `0.0` it defaults to `1`. Everywhere where the indicator is not `0` the data will be flagged" checked="false" truevalue="plot" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	831 <param argument="flag" type="float" value="255.0" optional="true" label="Any, optional The flag value the function uses to mark observations" help="Defaults to the ``BAD`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	832 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	833 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	834 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	835 <when value="resampling">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	836 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	837 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	838 <option value="concatFlags">concatFlags: Project flags/history of `field` to `target` and adjust to the frequeny grid</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	839 <option value="reindex">reindex: Change a variables index</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	840 <option value="resample">resample: Resample data points and flags to a regular frequency</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	841 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	842 <when value="concatFlags">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	843 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	844 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	845 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	846 <param argument="target" type="text" optional="true" label="Target" help="The name of the variable to process."/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	847 <param argument="method" type="select" value="auto" optional="true" label="method" help="Method to project the flags of `field` to the flags to `target`: * ``'auto'``: invert the last alignment/resampling operation (that is not already inverted) * ``'nagg'``: project a flag of `field` to all timestamps of `target` within the range +/- `freq`/2. * ``'bagg'``: project a flag of `field` to all preceeding timestamps of `target` within the range `freq` * ``'fagg'``: project a flag of `field` to all succeeding timestamps of `target` within the range `freq` * ``'interpolation'`` - project a flag of `field` to all timestamps of `target` within the range +/- `freq` * ``'sshift'`` - same as interpolation * ``'nshift'`` - project a flag of `field` to the neaerest timestamps in `target` within the range +/- `freq`/2 * ``'bshift'`` - project a flag of `field` to nearest preceeding timestamps in `target` * ``'nshift'`` - project a flag of `field` to nearest succeeding timestamps in `target` * ``'match'`` - project a flag of `field` to all identical timestamps `target`">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	848 <option value="fagg">fagg</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	849 <option value="bagg">bagg</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	850 <option value="nagg">nagg</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	851 <option value="fshift">fshift</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	852 <option value="bshift">bshift</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	853 <option value="nshift">nshift</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	854 <option value="sshift">sshift</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	855 <option value="match">match</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	856 <option value="auto">auto</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	857 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	858 <param argument="invert" type="boolean" label="If True, not the actual method is applied, but its inversion-method" help="If True, not the actual method is applied, but its inversion-method" checked="true" truevalue="invert" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	859 <param argument="freq" type="text" optional="true" label="Projection range" help="If ``None`` the sampling frequency of `field` is used"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	860 <param argument="drop" type="boolean" label="Remove `field` if ``True``" help="Remove `field` if ``True``" checked="false" truevalue="drop" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	861 <param argument="squeeze" type="boolean" label="squeeze" help="Squeeze the history into a single column if ``True``, function specific flag information is lost" checked="false" truevalue="squeeze" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	862 <param argument="override" type="boolean" label="Overwrite existing flags if ``True``" help="Overwrite existing flags if ``True``" checked="false" truevalue="override" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	863 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	864 <when value="reindex">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	865 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	866 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	867 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	868 <param argument="index" type="text" value="" label="Determines the new index" help="* If an `offset` string: new index will range from start to end of the original index of `field`, exhibting a uniform sampling rate of `idx` * If a `str` that matches a field present in the `SaQC` object, that fields index will be used as new index of `field` * If an `pd.index` object is passed, that will be the new index of `field`">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	869 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	870 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	871 <param argument="method" type="select" value="match" optional="true" label="method" help="Determines which of the origins indexes periods to comprise into the calculation of a new flag and a new data value at any period of the new index. * Aggregations Reindexer. Aggregations are data and flags independent, (pure) index selection methods: * `'bagg'`/`'fagg'`: backwards/forwards aggregation . Any new index period gets assigned an aggregation of the values at periods in the original index, that lie between itself and its successor/predecessor. * `'nagg'`: nearest aggregation : Any new index period gets assigned an aggregation of the values at periods in the original index between its direcet predecessor and successor, it is the nearest neighbor to. * Rolling reindexer. Rolling reindexers are equal to aggregations, when projecting between regular and irregular sampling grids forth and back. But due to there simple rolling window construction, they are easier to comprehend, predict and parametrize. On the downside, they are much more expensive computationally and Also, periods can get included in the aggregation to multpiple target periods, (when rolling windows overlap). * `'broll'`/`'froll'`: Any new index period gets assigned an aggregation of all the values at periods of the original index, that fall into a directly preceeding/succeeding window of size `reindex_window`. * Shifts. Shifting methods are shortcuts for aggregation reindex methods, combined with selecting 'last' or 'first' as the `data_aggregation` method. Therefor, both, the `flags_aggregation` and the `data_aggregation` are ignored when using a `shift` reindexer. Also, periods where the data evaluates to `NaN` are dropped before shift index selection. * `'bshift'`/`fshift`: backwards/forwards shift . Any new index period gets assigned the first/last valid (not a data NaN) value it succeeds/preceeds * `'nshift'`: nearest shift : Any new index period gets assigned the value of its closest neighbor in the original index. * Pillar point Mappings. Index selection method designed to select indices suitable for linearly interpolating index values from surrounding pillar points in the original index, or inverting such a selection. Periods where the data evaluates to `NaN`, are dropped from consideration. * `'mshift'`: Merge predecessors and successors. Any new index period gets assigned an aggregation/interpolation comprising the last and the next valid period in the original index. * `'sshift'`: Split -map values onto predecessors and successors. Same as `mshift`, but with a correction that prevents missing value flags from being mapped to continuous data chunk bounds. * Inversion of last method: try to select the method, that * `'invert``">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	872 <option value="fagg">fagg</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	873 <option value="bagg">bagg</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	874 <option value="nagg">nagg</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	875 <option value="froll">froll</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	876 <option value="broll">broll</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	877 <option value="nroll">nroll</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	878 <option value="fshift">fshift</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	879 <option value="bshift">bshift</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	880 <option value="nshift">nshift</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	881 <option value="match">match</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	882 <option value="sshift">sshift</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	883 <option value="mshift">mshift</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	884 <option value="invert">invert</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	885 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	886 <param argument="tolerance" type="text" optional="true" label="Limiting the distance, values can be shifted or comprised into aggregation" help="Limiting the distance, values can be shifted or comprised into aggregation"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	887 <param argument="data_aggregation" type="text" optional="true" label="data_aggregation" help="Function string or custom Function, determining how to aggregate new data values from the values at the periods selected according to the `index_selection_method`. If a scalar value is passed, the new data series will just evaluate to that scalar at any new index"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	888 <param argument="flags_aggregation" type="text" optional="true" label="flags_aggregation" help="Function string or custom Function, determining how to aggregate new flags values from the values at the periods selected according to the `index_selection_method`. If a scalar value is passed, the new flags series will just evaluate to that scalar at any new index"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	889 <param argument="broadcast" type="boolean" label="broadcast" help="Weather to propagate aggregation result to full reindex window when using aggregation reindexer. (as opposed to only assign to next/previous/closest)" checked="true" truevalue="broadcast" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	890 <param argument="squeeze" type="boolean" label="squeeze" help="" checked="false" truevalue="squeeze" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	891 <param argument="override" type="boolean" label="override" help="" checked="false" truevalue="override" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	892 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	893 <when value="resample">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	894 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	895 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	896 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	897 <param argument="freq" type="text" value="" label="Offset string" help="Sampling rate of the target frequency grid">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	898 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	899 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	900 <param argument="func" type="text" value="mean" optional="true" label="Aggregation function" help="See notes for performance considerations"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	901 <param argument="method" type="select" value="bagg" optional="true" label="Specifies which intervals to be aggregated for a certain timestamp" help="(preceding, succeeding or surrounding interval). See description above for more details">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	902 <option value="fagg">fagg</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	903 <option value="bagg">bagg</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	904 <option value="nagg">nagg</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	905 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	906 <param argument="maxna" type="integer" optional="true" label="Maximum number of allowed ``NaN``s in a resampling interval" help="If exceeded, the aggregation of the interval evaluates to ``NaN``"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	907 <param argument="maxna_group" type="integer" optional="true" label="Same as `maxna` but for consecutive NaNs" help="Same as `maxna` but for consecutive NaNs"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	908 <param argument="squeeze" type="boolean" label="squeeze" help="" checked="false" truevalue="squeeze" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	909 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	910 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	911 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	912 <when value="residuals">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	913 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	914 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	915 <option value="calculatePolynomialResiduals">calculatePolynomialResiduals: Fits a polynomial model to the data and calculate the residuals</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	916 <option value="calculateRollingResiduals">calculateRollingResiduals: Calculate the diff of a rolling-window function and the data</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	917 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	918 <when value="calculatePolynomialResiduals">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	919 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	920 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	921 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	922 <param argument="window" type="text" value="" label="The size of the window you want to use for fitting" help="If an integer is passed, the size refers to the number of periods for every fitting window. If an offset string is passed, the size refers to the total temporal extension. The window will be centered around the vaule-to-be-fitted. For regularly sampled timeseries the period number will be casted down to an odd number if even">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	923 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	924 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	925 <param argument="order" type="integer" value="" label="The degree of the polynomial used for fitting" help="The degree of the polynomial used for fitting"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	926 <param argument="min_periods" type="integer" value="0" optional="true" label="min_periods" help="The minimum number of periods, that has to be available in every values fitting surrounding for the polynomial fit to be performed. If there are not enough values, np.nan gets assigned. Default (0) results in fitting regardless of the number of values present (results in overfitting for too sparse intervals). To automatically set the minimum number of periods to the number of values in an offset defined window size, pass np.nan"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	927 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	928 <when value="calculateRollingResiduals">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	929 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	930 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	931 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	932 <param argument="window" type="text" value="" label="The size of the window you want to roll with" help="If an integer is passed, the size refers to the number of periods for every fitting window. If an offset string is passed, the size refers to the total temporal extension. For regularly sampled timeseries, the period number will be casted down to an odd number if ``center=True``">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	933 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	934 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	935 <param argument="func" type="text" value="mean" optional="true" label="func" help="default mean Function to roll with"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	936 <param argument="min_periods" type="integer" value="0" optional="true" label="The minimum number of periods to get a valid value" help="The minimum number of periods to get a valid value"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	937 <param argument="center" type="boolean" label="If True, center the rolling window" help="If True, center the rolling window" checked="true" truevalue="center" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	938 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	939 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	940 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	941 <when value="rolling">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	942 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	943 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	944 <option value="rolling">rolling: Calculate a rolling-window function on the data</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	945 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	946 <when value="rolling">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	947 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	948 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	949 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	950 <param argument="window" type="text" value="" label="The size of the window you want to roll with" help="If an integer is passed, the size refers to the number of periods for every fitting window. If an offset string is passed, the size refers to the total temporal extension. For regularly sampled timeseries, the period number will be casted down to an odd number if ``center=True``">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	951 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	952 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	953 <param argument="func" type="text" value="mean" optional="true" label="func" help="default mean Function to roll with"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	954 <param argument="min_periods" type="integer" value="0" optional="true" label="The minimum number of periods to get a valid value" help="The minimum number of periods to get a valid value"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	955 <param argument="center" type="boolean" label="If True, center the rolling window" help="If True, center the rolling window" checked="true" truevalue="center" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	956 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	957 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	958 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	959 <when value="scores">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	960 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	961 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	962 <option value="assignKNNScore">assignKNNScore: Score datapoints by an aggregation of the distances to their `k` nearest neighbors</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	963 <option value="assignLOF">assignLOF: Assign Local Outlier Factor (LOF)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	964 <option value="assignUniLOF">assignUniLOF: Assign univariate Local Outlier Factor (LOF)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	965 <option value="assignZScore">assignZScore: Calculate (rolling) Zscores</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	966 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	967 <when value="assignKNNScore">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	968 <repeat name="field_repeat" title="Field(s)" min="1">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	969 <param argument="field" type="text" value="" label="Name for field" help="Name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	970 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	971 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	972 </repeat>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	973 <param argument="target" type="text" value="" label="Target" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	974 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	975 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	976 <param argument="n" type="integer" value="10" optional="true" label="n" help=": The number of nearest neighbors to which the distance is comprised in every datapoints scoring calculation"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	977 <param argument="func" type="text" value="sum" optional="true" label="func" help="default sum A function that assigns a score to every one dimensional array, containing the distances to every datapoints `n` nearest neighbors"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	978 <conditional name="freq_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	979 <param name="freq_select_type" type="select" value="number" label="freq Input Mode" help="Determines the segmentation of the data into partitions, the kNN algorithm is applied onto individually. * ``np.inf``: Apply Scoring on whole data set at once * ``x`` 0 : Apply scoring on successive data chunks of periods length ``x`` * Offset String : Apply scoring on successive partitions of temporal extension matching the passed offset string">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	980 <option value="number">Frequency as Value (float)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	981 <option value="offset">Frequency as Offset string</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	982 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	983 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	984 <when value="number">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	985 <param argument="freq" type="float" value="inf" label="freq (Frequency as Value (float))"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	986 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	987 <when value="offset">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	988 <param argument="freq" type="text" value="" label="freq (Frequency as Offset string)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	989 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	990 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	991 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	992 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	993 <param name="freq" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	994 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	995 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	996 <param argument="min_periods" type="integer" value="2" optional="true" label="min_periods" help="The minimum number of periods that have to be present in a window for the kNN scoring to be applied. If the number of periods present is below `min_periods`, the score for the datapoints in that window will be np.nan"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	997 <param argument="algorithm" type="select" value="ball_tree" optional="true" label="The search algorithm to find each datapoints k nearest neighbors" help="The keyword just gets passed on to the underlying sklearn method. See reference [1] for more information on the algorithm">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	998 <option value="ball_tree">ball_tree</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	999 <option value="kd_tree">kd_tree</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1000 <option value="brute">brute</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1001 <option value="auto">auto</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1002 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1003 <param argument="metric" type="text" value="minkowski" optional="true" label="The metric the distances to any datapoints neighbors is computed with" help="The default of `metric` together with the default of `p` result in the euclidian to be applied. The keyword just gets passed on to the underlying sklearn method. See reference [1] for more information on the algorithm"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1004 <param argument="p" type="integer" value="2" optional="true" label="p" help=": The grade of the metrice specified by parameter `metric`. The keyword just gets passed on to the underlying sklearn method. See reference [1] for more information on the algorithm"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1005 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1006 <when value="assignLOF">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1007 <repeat name="field_repeat" title="Field(s)" min="1">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1008 <param argument="field" type="text" value="" label="Name for field" help="Name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1009 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1010 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1011 </repeat>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1012 <param argument="target" type="text" value="" label="Target" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1013 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1014 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1015 <param argument="n" type="integer" value="20" optional="true" label="Number of periods to be included into the LOF calculation" help="Defaults to `20`, which is a value found to be suitable in the literature"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1016 <conditional name="freq_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1017 <param name="freq_select_type" type="select" value="number" label="freq Input Mode" help="Determines the segmentation of the data into partitions, the kNN algorithm is applied onto individually">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1018 <option value="number">Frequency as Value (float)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1019 <option value="offset">Frequency as Offset string</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1020 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1021 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1022 <when value="number">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1023 <param argument="freq" type="float" value="inf" label="freq (Frequency as Value (float))"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1024 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1025 <when value="offset">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1026 <param argument="freq" type="text" value="" label="freq (Frequency as Offset string)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1027 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1028 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1029 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1030 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1031 <param name="freq" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1032 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1033 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1034 <param argument="min_periods" type="integer" value="2" optional="true" label="min_periods" help=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1035 <param argument="algorithm" type="select" value="ball_tree" optional="true" label="algorithm" help="Algorithm used for calculating the `n`-nearest neighbors needed for LOF calculation">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1036 <option value="ball_tree">ball_tree</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1037 <option value="kd_tree">kd_tree</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1038 <option value="brute">brute</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1039 <option value="auto">auto</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1040 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1041 <param argument="p" type="integer" value="2" optional="true" label="p" help="Degree of the metric ( Minkowski ), according to wich distance to neighbors is determined. Most important values are: * `1` - Manhatten Metric * `2` - Euclidian Metric"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1042 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1043 <when value="assignUniLOF">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1044 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1045 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1046 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1047 <param argument="n" type="integer" value="20" optional="true" label="Number of periods to be included into the LOF calculation" help="Defaults to `20`, which is a value found to be suitable in the literature. * `n` determines the locality of an observation (its `n` nearest neighbors) and sets the upper limit of values of an outlier clusters (i.e. consecutive outliers). Outlier clusters of size greater than `n/2` may not be detected reliably. * The larger `n`, the lesser the algorithm's sensitivity to local outliers and small or singleton outliers points. Higher values greatly increase numerical costs"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1048 <param argument="algorithm" type="select" value="ball_tree" optional="true" label="algorithm" help="Algorithm used for calculating the `n`-nearest neighbors needed for LOF calculation">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1049 <option value="ball_tree">ball_tree</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1050 <option value="kd_tree">kd_tree</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1051 <option value="brute">brute</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1052 <option value="auto">auto</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1053 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1054 <param argument="p" type="integer" value="1" optional="true" label="p" help="Degree of the metric ( Minkowski ), according to wich distance to neighbors is determined. Most important values are: * `1` - Manhatten Metric * `2` - Euclidian Metric"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1055 <conditional name="density_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1056 <param name="density_select_type" type="select" value="auto" label="How to calculate the temporal distance/density for the variable-to-be-flagged Mode" help="* float - introduces linear density with an increment equal to `density` * Callable - calculates the density by applying the function passed onto the variable to be flagged (passed as Series)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1057 <option value="auto">Automatic ('auto')</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1058 <option value="float">Specific Value (float)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1059 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1060 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1061 <when value="auto">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1062 <param name="density" type="hidden" value="auto" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1063 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1064 <when value="float">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1065 <param argument="density" type="float" value="" label="How to calculate the temporal distance/density for the variable-to-be-flagged (float value)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1066 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1067 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1068 <param name="density" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1069 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1070 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1071 <param argument="fill_na" type="boolean" label="If True, NaNs in the data are filled with a linear interpolation" help="If True, NaNs in the data are filled with a linear interpolation" checked="true" truevalue="fill_na" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1072 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1073 <when value="assignZScore">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1074 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1075 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1076 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1077 <param argument="window" type="text" optional="true" label="Size of the window" help="can be determined as: * Offset String, denoting the windows temporal extension * Integer, denoting the windows number of periods. * `None` (default), All data points share the same scoring window, which than equals the whole data"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1078 <param argument="norm_func" type="text" value="std" optional="true" label="norm_func" help="default mean Function to calculate the scaling for every window"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1079 <param argument="model_func" type="text" value="mean" optional="true" label="model_func" help="default std Function to calculate the center moment in every window"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1080 <param argument="center" type="boolean" label="Weather or not to center the target value in the scoring window" help="If `False`, the target value is the last value in the window" checked="true" truevalue="center" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1081 <param argument="min_periods" type="integer" optional="true" label="min_periods" help="Minimum number of valid meassurements in a scoring window, to consider the resulting score valid"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1082 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1083 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1084 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1085 <when value="tools">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1086 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1087 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1088 <option value="copyField">copyField: Make a copy of the data and flags of `field`</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1089 <option value="dropField">dropField: Drops field from the data and flags</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1090 <option value="flagByClick">flagByClick: Pop up GUI for adding or removing flags by selection of points in the data plot</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1091 <option value="plot">plot: Plot data and flags or store plot to file</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1092 <option value="renameField">renameField: Rename field in data and flags</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1093 <option value="selectTime">selectTime: Realizes masking within saqc</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1094 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1095 <when value="copyField">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1096 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1097 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1098 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1099 <param argument="target" type="text" value="" label="Target" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1100 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1101 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1102 <param argument="overwrite" type="boolean" label="overwrite" help="overwrite target, if already existant" checked="false" truevalue="overwrite" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1103 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1104 <when value="dropField">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1105 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1106 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1107 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1108 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1109 <when value="flagByClick">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1110 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1111 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1112 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1113 <param argument="max_gap" type="text" optional="true" label="max_gap" help="If ``None``, all data points will be connected, resulting in long linear lines, in case of large data gaps. ``NaN`` values will be removed before plotting. If an offset string is passed, only points that have a distance below ``max_gap`` are connected via the plotting line"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1114 <param argument="gui_mode" type="select" value="GUI" optional="true" label="gui_mode" help="* `` GUI `` (default), spawns TK based pop-up GUI, enabling scrolling and binding for subplots * `` overlay ``, spawns matplotlib based pop-up GUI. May be less conflicting, but does not support scrolling or binding">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1115 <option value="GUI">GUI</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1116 <option value="overlay">overlay</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1117 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1118 <param argument="dfilter" type="float" value="255.0" optional="true" label="dfilter" help="Any, optional Defines which observations will be masked based on the already existing flags. Any data point with a flag equal or worse to this threshold will be passed as ``NaN`` to the function. Defaults to the ``DFILTER_ALL`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1119 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1120 <when value="plot">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1121 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1122 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1123 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1124 <param argument="path" type="text" optional="true" label="path" help="If ``None`` is passed, interactive mode is entered; plots are shown immediatly and a user need to close them manually before execution continues. If a filepath is passed instead, store-mode is entered and the plot is stored unter the passed location"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1125 <param argument="max_gap" type="text" optional="true" label="max_gap" help="If ``None``, all data points will be connected, resulting in long linear lines, in case of large data gaps. ``NaN`` values will be removed before plotting. If an offset string is passed, only points that have a distance below ``max_gap`` are connected via the plotting line"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1126 <param argument="mode" type="text" value="oneplot" optional="true" label="mode" help="How to process multiple variables to be plotted: * ` oneplot ` : plot all variables with their flags in one axis (default) * ` subplots ` : generate subplot grid where each axis contains one variable plot with associated flags * ` biplot ` : plotting first and second variable in field against each other in a scatter plot (point cloud)"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1127 <conditional name="history_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1128 <param name="history_select_type" type="select" value="valid" label="Discriminate the plotted flags with respect to the tests they originate from Mode" help="* `` valid ``: Only plot flags, that are not overwritten by subsequent tests. Only list tests in the legend, that actually contributed flags to the overall result. * ``None``: Just plot the resulting flags for one variable, without any historical and/or meta information. * list of strings: List of tests. Plot flags from the given tests, only. * ``complete`` (not recommended, deprecated): Plot all the flags set by any test, independently from them being removed or modified by subsequent modifications. (this means: plotted flags do not necessarily match with flags ultimately assigned to the data)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1129 <option value="valid">Valid</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1130 <option value="complete">Complete</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1131 <option value="list">Custom List</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1132 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1133 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1134 <when value="valid">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1135 <param name="history" type="hidden" value="valid" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1136 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1137 <when value="complete">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1138 <param name="history" type="hidden" value="complete" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1139 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1140 <when value="list">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1141 <param argument="history" type="text" value="" label="Discriminate the plotted flags with respect to the tests they originate from (comma-separated)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1142 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1143 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1144 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1145 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1146 <param name="history" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1147 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1148 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1149 <param argument="xscope" type="text" optional="true" label="Determine a chunk of the data to be plotted" help="``xscope`` can be anything, that is a valid argument to the ``pandas.Series.__getitem__`` method"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1150 <param argument="yscope" type="text" optional="true" label="yscope" help="Either a tuple of 2 scalars that determines all plots' y-view limits, or a list of those tuples, determining the different variables y-view limits (must match number of variables) or a dictionary with variables as keys and the y-view tuple as values"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1151 <param argument="ax" type="text" optional="true" label="ax" help="If not ``None``, plot into the given ``matplotlib.Axes`` instance, instead of a newly created ``matplotlib.Figure``. This option offers a possibility to integrate ``SaQC`` plots into custom figure layouts"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1152 <param argument="dfilter" type="float" value="inf" optional="true" label="dfilter" help="Any, optional Defines which observations will be masked based on the already existing flags. Any data point with a flag equal or worse to this threshold will be passed as ``NaN`` to the function. Defaults to the ``DFILTER_ALL`` value of the translation scheme"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1153 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1154 <when value="renameField">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1155 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1156 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1157 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1158 <param argument="new_name" type="text" value="" label="String, field is to be replaced with" help="String, field is to be replaced with">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1159 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1160 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1161 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1162 <when value="selectTime">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1163 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1164 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1165 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1166 <param argument="mode" type="select" value="" label="The masking mode" help="- periodic : parameters period_start , end are evaluated to generate a periodical mask - mask_var : data[mask_var] is expected to be a boolean valued timeseries and is used as mask">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1167 <option value="periodic">periodic</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1168 <option value="selection_field">selection_field</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1169 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1170 <param argument="selection_field" type="text" optional="true" label="selection_field" help="Only effective if mode == mask_var Fieldname of the column, holding the data that is to be used as mask. (must be boolean series) Neither the series` length nor its labels have to match data[field]`s index and length. An inner join of the indices will be calculated and values get masked where the values of the inner join are ``True``"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1171 <param argument="start" type="text" optional="true" label="start" help="Only effective if mode == seasonal String denoting starting point of every period. Formally, it has to be a truncated instance of mm-ddTHH:MM:SS . Has to be of same length as `end` parameter. See examples section below for some examples"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1172 <param argument="end" type="text" optional="true" label="end" help="Only effective if mode == periodic String denoting starting point of every period. Formally, it has to be a truncated instance of mm-ddTHH:MM:SS . Has to be of same length as `end` parameter. See examples section below for some examples"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1173 <param argument="closed" type="boolean" label="Wheather or not to include the mask defining bounds to the mask" help="Wheather or not to include the mask defining bounds to the mask" checked="true" truevalue="closed" falsevalue=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1174 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1175 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1176 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1177 <when value="transformation">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1178 <conditional name="method_cond" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1179 <param name="method_select" type="select" label="Method">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1180 <option value="transform">transform: Transform data by applying a custom function on data chunks of variable size. Existing flags are preserved</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1181 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1182 <when value="transform">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1183 <param argument="field" type="text" value="" label="Field" help="The name of the variable to process.">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1184 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1185 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1186 <param argument="func" type="text" value="" label="Transformation function" help="Transformation function">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1187 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1188 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1189 <conditional name="freq_cond">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1190 <param name="freq_select_type" type="select" value="none" label="Size of the data window Input Mode" help="The transformation is applied on each window individually * ``None``: Apply transformation on the entire data set at once * ``int`` : Apply transformation on successive data chunks of the given length. Must be grater than 0. * Offset String : Apply transformation on successive data chunks of the given temporal extension">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1191 <option value="number">Frequency as Value (float)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1192 <option value="offset">Frequency as Offset string</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1193 <option value="none">None (use default)</option>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1194 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1195 <when value="number">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1196 <param argument="freq" type="float" value="" label="Size of the data window (Frequency as Value (float))"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1197 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1198 <when value="offset">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1199 <param argument="freq" type="text" value="" label="Size of the data window (Frequency as Offset string)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1200 <validator type="empty_field"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1201 </param>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1202 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1203 <when value="none">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1204 <param name="freq" type="hidden" value="__none__" label=""/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1205 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1206 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1207 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1208 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1209 </when>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1210 </conditional>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1211 </repeat>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1212 </inputs>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1213 <outputs>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1214 <data name="output" format="csv" label="${tool.name} on ${on_string}: Processed Data" from_work_dir="output.csv" hidden="false"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1215 <collection name="plots" type="list" label="${tool.name} on ${on_string}: Plots (if any generated)">
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1216 <discover_datasets pattern="(?P<name>.*)\.png" ext="png" visible="true"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1217 </collection>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1218 <data name="config_out" format="txt" label="${tool.name} on ${on_string}: Generated SaQC Configuration" from_work_dir="config.csv" hidden="false"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1219 </outputs>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1220 <expand macro="saqc_tests"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1221 <help><![CDATA[This tool provides access to SaQC functions for quality control of time series data. Select a module and method, then configure its parameters.]]></help>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1222 <expand macro="citations"/>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1223 </tool>
035ed250268e planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe ufz parents: diff changeset	1224

Mercurial > repos > ufz > saqc

annotate saqc.xml @ 0:035ed250268e draft default tip