dimet_pca_plot: macros.xml annotate

annotate macros.xml @ 1:78fd9274a21b draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 6da96d865a3a557cfa3ad09e1cfa830519e73748

author	iuc
date	Tue, 06 Aug 2024 17:31:47 +0000
parents	58498838f0e0
children

rev	line source
0 58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1 <macros>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	2 <token name="@TOOL_VERSION@">0.2.4</token>
1 78fd9274a21b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 6da96d865a3a557cfa3ad09e1cfa830519e73748 iuc parents: 0 diff changeset	3 <token name="@VERSION_SUFFIX@">4</token>
0 58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	4 <xml name="requirements">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	5 <requirements>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	6 <requirement type="package" version="@TOOL_VERSION@">dimet</requirement>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	7 </requirements>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	8 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	9 <xml name="statistical_test_for_multigroup">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	10 <param name="stat_test" type="select" value="KW" display="radio" label="Select statistical to apply" help="Please enter at max 1 statistical test by file">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	11 <option value="KW">Kruskal-Wallis</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	12 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	13 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	14 <xml name="statistical_test_for_bivariate_analysis">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	15 <param name="stat_test" type="select" value="pearson" display="radio" label="Select statistical to apply" help="Please enter at max 1 statistical test by file">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	16 <option value="pearson">pearson</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	17 <option value="spearman">spearman</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	18 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	19 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	20 <xml name="statistical_test">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	21 <conditional name="statistics">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	22 <param name="statistical_test_type" type="select" label="Choose which type of statistical test to perform" help="Choose which type of statistical test to perform">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	23 <option value="parametric">parametric</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	24 <option value="non-parametric-rank" selected="true">non-parametric (rank based)</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	25 <option value="non-parametric-distribution">non-parametric (distribution based)</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	26 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	27 <when value="parametric">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	28 <param name="stat_test" type="select" display="radio" label="Select statistical to apply" help="Please enter at max 1 statistical test by file">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	29 <option value="Tt" selected="true">t-test</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	30 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	31 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	32 <when value="non-parametric-rank">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	33 <param name="stat_test" type="select" display="radio" label="Select statistical to apply" help="Please enter at max 1 statistical test by file">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	34 <option value="MW">Mann Whitney</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	35 <option value="KW">Kruskal-Wallis</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	36 <option value="ranksum" selected="true">Wilcoxon's rank sum test</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	37 <option value="Wcox">Wilcoxon signed-rank test</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	38 <option value="BrMu">Brunner-Munzel test</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	39 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	40 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	41 <when value="non-parametric-distribution">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	42 <param name="stat_test" type="select" display="radio" label="Select statistical to apply" help="Please enter at max 1 statistical test by file">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	43 <option value="prm-scipy" selected="true">permutations test</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	44 <option value="disfit">distribution fitting (of the z-score of the ratios), disfit needs several hundreds of metabolites to be trustful.</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	45 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	46 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	47 </conditional>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	48
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	49 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	50 <xml name="citations">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	51 <citations>
1 78fd9274a21b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 6da96d865a3a557cfa3ad09e1cfa830519e73748 iuc parents: 0 diff changeset	52 <citation type="doi">10.1093/bioinformatics/btae282</citation>
0 58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	53 <citation type="bibtex">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	54 @software{Galvis_Rodriguez_DIMet,
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	55 author = {Galvis Rodriguez, Johanna and Guyon, Joris and Dartigues, Benjamin and Specque, Florian and Daubon, Thomas and Karkar, Slim and Nikolski, Macha},
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	56 license = {MIT},
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	57 title = {{DIMet}},
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	58 url = {https://github.com/cbib/DIMet}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	59 }
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	60 </citation>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	61 </citations>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	62
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	63 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	64 <xml name="metadata_file_macros">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	65 <param name="metadata_path" type="data" format="tabular" label="metadata file" help="The metadata, a unique file with the description of the samples in your measures' files. This is compulsory, see section Metadata File Information."/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	66 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	67 <xml name="abundance_file_macros">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	68 <param name="abundance_file" type="data" format="tabular" label="Metabolite abundance file" help="The total abundances file must be organized as a matrix: - The first column must contain Metabolite IDs that are unique (not repeated) within the file. - The rest of the columns correspond to the samples - The rows correspond to the metabolites - The values must be tab separated, with the first row containing the sample/column labels. (see help below for more details)"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	69 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	70 <xml name="enrichment_file_macros">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	71 <param name="me_or_frac_contrib_file" type="data" format="tabular" label="Metabolite enrichment file" help="The mean enrichment file must be organized as a matrix: - The first column must contain Metabolite IDs that are unique (not repeated) within the file. - The rest of the columns correspond to the samples. - The rows correspond to the metabolites. - The values must be tab separated, with the first row containing the sample/column labels. (see help below for more details)"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	72 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	73 <xml name="isotopologue_prop_file_macros">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	74 <param name="isotop_prop_file" type="data" format="tabular" label="Isotopologues proportion abundance file" help=" The isotopologue proportions file must be organized as a matrix: - The first column must contain isotopologues IDs that are unique (not repeated) within the file. - The rest of the columns correspond to the samples. - The rows correspond to the isotopologues. - The values must be tab separated, with the first row containing the sample/column labels (see help below for more details)."/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	75 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	76 <xml name="isotopologue_abs_file_macros">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	77 <param name="isotop_abs_file" type="data" format="tabular" label="Isotopologues absolute abundance file" help="The isotopologue absolute values file must be organized as a matrix: - The first column must contain isotopologues IDs that are unique (not repeated) within the file. - The rest of the columns correspond to the samples. - The rows correspond to the isotopologues. - The values must be tab separated, with the first row containing the sample/column labels (see help below for more details)."/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	78 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	79 <xml name="input_parameters_pca">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	80 <expand macro="abundance_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	81 <param name="me_or_frac_contrib_file" type="data" optional="true" format="tabular" label="Mean enrichment or fraction contribution file"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	82 <expand macro="metadata_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	83 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	84 <xml name="input_parameters_abundance">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	85 <expand macro="abundance_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	86 <expand macro="metadata_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	87 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	88 <xml name="input_parameters_enrichment">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	89 <expand macro="enrichment_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	90 <expand macro="metadata_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	91 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	92 <xml name="input_parameters_isotopologue">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	93 <expand macro="isotopologue_prop_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	94 <expand macro="metadata_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	95 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	96 <xml name="input_parameters_metabologram">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	97 <conditional name="data_input">
1 78fd9274a21b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 6da96d865a3a557cfa3ad09e1cfa830519e73748 iuc parents: 0 diff changeset	98 <param name="data_input_selector" type="select" label="Abundance or Enrichment quantification files" help="Select between metabolite total abundances and mean enrichment files">
0 58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	99 <option value="abundance" selected="True">abundance</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	100 <option value="mean_enrichment">mean_enrichment</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	101 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	102 <when value="abundance">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	103 <expand macro="abundance_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	104 <expand macro="statistical_test"/>
1 78fd9274a21b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 6da96d865a3a557cfa3ad09e1cfa830519e73748 iuc parents: 0 diff changeset	105
0 58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	106 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	107 <when value="mean_enrichment">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	108 <expand macro="enrichment_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	109 <expand macro="statistical_test"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	110 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	111 </conditional>
1 78fd9274a21b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 6da96d865a3a557cfa3ad09e1cfa830519e73748 iuc parents: 0 diff changeset	112 <expand macro="metadata_file_macros"/>
0 58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	113 <param name="path_kegg_metabolites" type="data" format="tabular" label="Pathways kegg metabolites file" help="A file with the pathways and respective metabolites ID, that must match with those in your metabolomics data. The names of the columns must be the pathways' names, see the minimal data example downloaded from zenodo as explained above. (see help below for more details)"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	114 <param name="path_kegg_transcripts" type="data" format="tabular" label="Pathways kegg transcripts file" help="A file with the pathways and respective gene symbols, which must match with those present in the transcriptomics data. The names of the columns must be the pathways' names, see the minimal data example downloaded from zenodo as explained above. (see help below for more details)"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	115 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	116 <xml name="input_parameters_bivar_analysis">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	117 <conditional name="data_input">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	118 <param name="data_input_selector" type="select" label="Abundance, Enrichment or Isotopologues quantification files" help="Select between raw abundance, mean enrichment or isotopologue files">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	119 <option value="abundance" selected="True">abundance</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	120 <option value="mean_enrichment">mean_enrichment</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	121 <option value="isotop_prop">isotop_prop</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	122 <option value="isotop_abs">isotop_abs</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	123 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	124 <when value="abundance">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	125 <expand macro="abundance_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	126
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	127 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	128 <when value="mean_enrichment">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	129 <expand macro="enrichment_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	130 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	131 <when value="isotop_prop">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	132 <expand macro="isotopologue_prop_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	133 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	134 <when value="isotop_abs">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	135 <expand macro="isotopologue_abs_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	136 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	137 </conditional>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	138 <expand macro="metadata_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	139 <expand macro="statistical_test_for_bivariate_analysis"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	140 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	141 <xml name="input_parameters_diff_analysis">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	142 <conditional name="data_input">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	143 <param name="data_input_selector" type="select" label="Abundance, Enrichment or Isotopologues quantification files" help="Select between raw abundance, mean enrichment or isotopologue files">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	144 <option value="abundance" selected="True">abundance</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	145 <option value="mean_enrichment">mean_enrichment</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	146 <option value="isotop_prop">isotop_prop</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	147 <option value="isotop_abs">isotop_abs</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	148 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	149 <when value="abundance">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	150 <expand macro="abundance_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	151 <expand macro="statistical_test"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	152
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	153 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	154 <when value="mean_enrichment">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	155 <expand macro="enrichment_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	156 <expand macro="statistical_test"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	157 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	158 <when value="isotop_prop">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	159 <expand macro="isotopologue_prop_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	160 <expand macro="statistical_test"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	161 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	162 <when value="isotop_abs">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	163 <expand macro="isotopologue_abs_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	164 <expand macro="statistical_test"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	165 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	166 </conditional>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	167 <expand macro="metadata_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	168 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	169 <xml name="input_parameters_multi_diff_analysis">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	170 <conditional name="data_input">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	171 <param name="data_input_selector" type="select" label="Abundance, Enrichment or Isotopologues quantification files" help="Select between raw abundance, mean enrichment or isotopologue files">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	172 <option value="abundance" selected="True">abundance</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	173 <option value="mean_enrichment">mean_enrichment</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	174 <option value="isotop_prop">isotop_prop</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	175 <option value="isotop_abs">isotop_abs</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	176 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	177 <when value="abundance">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	178 <expand macro="abundance_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	179 <expand macro="statistical_test_for_multigroup"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	180
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	181 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	182 <when value="mean_enrichment">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	183 <expand macro="enrichment_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	184 <expand macro="statistical_test_for_multigroup"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	185 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	186 <when value="isotop_prop">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	187 <expand macro="isotopologue_prop_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	188 <expand macro="statistical_test_for_multigroup"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	189 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	190 <when value="isotop_abs">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	191 <expand macro="isotopologue_abs_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	192 <expand macro="statistical_test_for_multigroup"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	193 </when>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	194 </conditional>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	195 <expand macro="metadata_file_macros"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	196 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	197 <xml name="suffix">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	198 <param name="suffix" type="text" optional="false" label="suffix to add to output files" >
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	199 <sanitizer invalid_char="">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	200 <valid initial="string.ascii_letters,string.digits">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	201 <add value="_" />
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	202 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	203 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	204 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	205 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	206 <xml name="conditions">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	207 <param name="conditions" type="select" optional="false" multiple="true" label="Browse conditions from metadata file (1 min. only if two timepoints are set. 2 max.). You have to load a metadata file prior to have access to condition list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	208 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	209 <column name="condition" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	210 <column name="value" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	211 <filter type="unique_value" name="condition" column="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	212 <filter type="remove_value" value="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	213 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	214 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	215 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	216 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	217 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	218 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	219 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	220 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	221 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	222 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	223 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	224 <xml name="conditions_multigroup">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	225 <param name="conditions" type="select" optional="false" multiple="true" label="Browse conditions from metadata file. (1 min. only if three timepoints are set). You have to load a metadata file prior to have access to conditions">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	226 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	227 <column name="condition" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	228 <column name="value" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	229 <filter type="unique_value" name="condition" column="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	230 <filter type="remove_value" value="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	231 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	232 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	233 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	234 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	235 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	236 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	237 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	238 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	239 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	240 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	241 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	242 <xml name="timepoint_multigroup">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	243 <param name="timepoint" type="select" optional="true" multiple="true" label="Browse timepoint from metadata file (1 min. only if three conditions are set). You have to load a metadata file prior to have access to conditions">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	244 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	245 <column name="timepoint" index="2"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	246 <column name="value" index="2"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	247 <filter type="unique_value" name="timepoint" column="2"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	248 <filter type="remove_value" value="timepoint"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	249 <filter type="sort_by" name="timepoint" column="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	250 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	251 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	252 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	253 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	254 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	255 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	256 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	257 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	258 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	259 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	260 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	261 <xml name="timepoint">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	262 <param name="timepoint" type="select" optional="false" multiple="true" label="Browse timepoint from metadata file (1 min.)">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	263 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	264 <column name="timepoint" index="2"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	265 <column name="value" index="2"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	266 <filter type="unique_value" name="timepoint" column="2"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	267 <filter type="remove_value" value="timepoint"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	268 <filter type="sort_by" name="timepoint" column="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	269 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	270 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	271 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	272 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	273 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	274 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	275 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	276 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	277 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	278 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	279 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	280 <xml name="grouping">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	281 <param name="grouping" type="select" optional="false" multiple="true" label="Browse group to compare">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	282 <option value="condition" selected="true">condition</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	283 <option value="timepoint" selected="true">timepoint</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	284 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	285 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	286 <xml name="correction_method">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	287 <param name="correction_method" type="select" value="bonferroni" display="radio" label="Select multiple test correction to apply" help="Please enter at max 1 method">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	288 <option value="bonferroni">bonferroni</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	289 <option value="holm-sidak">holm-sidak</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	290 <option value="holm">holm</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	291 <option value="simes-hochberg">simes-hochberg</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	292 <option value="hommel">hommel</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	293 <option value="fdr_bh">fdr_bh</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	294 <option value="fdr_by">fdr_by</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	295 <option value="fdr_tsbh">fdr_tsbh</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	296 <option value="fdr_tsbky">fdr_tsbky</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	297 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	298 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	299 <xml name="compartments_enrichment">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	300 <param name="compartments" type="select" optional="false" multiple="true"
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	301 label="Browse compartments from metadata file (All needed). You have to load a metadata file prior to have access to compartments">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	302 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	303 <column name="compartment" index="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	304 <column name="value" index="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	305 <filter type="unique_value" name="compartment" column="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	306 <filter type="remove_value" value="compartment"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	307 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	308 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	309 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	310 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	311 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	312 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	313 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	314 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	315 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	316 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	317 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	318 <xml name="compartments_abundance">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	319 <param name="compartments" type="select" optional="false" multiple="true"
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	320 label="Browse compartments from metadata file (All needed). You have to load a metadata file prior to have access to compartments">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	321 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	322 <column name="compartment" index="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	323 <column name="value" index="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	324 <filter type="unique_value" name="compartment" column="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	325 <filter type="remove_value" value="compartment"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	326 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	327 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	328 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	329 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	330 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	331 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	332 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	333 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	334 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	335 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	336 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	337 <xml name="compartments_metabologram">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	338 <param name="compartments" type="select" optional="false" multiple="false"
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	339 label="Browse compartments from metadata file (1 max.). You have to load a metadata file prior to have access to compartments">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	340 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	341 <column name="compartment" index="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	342 <column name="value" index="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	343 <filter type="unique_value" name="compartment" column="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	344 <filter type="remove_value" value="compartment"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	345 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	346 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	347 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	348 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	349 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	350 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	351 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	352 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	353 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	354 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	355 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	356 <xml name="compartments">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	357 <param name="compartments" type="select" optional="false" multiple="true"
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	358 label="Browse compartments from metadata file (1 min.). You have to load a metadata file prior to have access to compartments">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	359 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	360 <column name="compartment" index="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	361 <column name="value" index="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	362 <filter type="unique_value" name="compartment" column="4"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	363 <filter type="remove_value" value="compartment"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	364 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	365 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	366 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	367 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	368 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	369 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	370 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	371 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	372 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	373 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	374 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	375 <xml name="abundance_metabolites_list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	376 <param name="metabolites_list" type="select" optional="false" multiple="true"
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	377 label="Select Metabolite(s) for condition 1 to plot (1 min). You have to load a abundance file prior to have access to metabolite list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	378 <validator type="length" min="1" message="Please enter at max 2 compartments"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	379 <options from_dataset="abundance_file">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	380 <column name="metabolite_or_isotopologue" index="0"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	381 <column name="value" index="0"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	382 <filter type="unique_value" name="metabolite_or_isotopologue" column="0"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	383 <filter type="remove_value" value="metabolite_or_isotopologue"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	384 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	385 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	386 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	387 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	388 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	389 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	390 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	391 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	392 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	393 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	394 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	395 <xml name="enrichment_metabolites_list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	396 <param name="metabolites_list" type="select" optional="false" multiple="true"
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	397 label="Select Metabolite(s) for condition 1 to plot (1 Min.). You have to load a abundance file prior to have access to metabolite list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	398 <validator type="length" min="1" message="Please enter at min 1 metabolite"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	399 <options from_dataset="me_or_frac_contrib_file">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	400 <column name="ID" index="0"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	401 <column name="value" index="0"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	402 <filter type="unique_value" name="ID" column="0"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	403 <filter type="remove_value" value="ID"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	404 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	405 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	406 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	407 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	408 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	409 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	410 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	411 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	412 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	413 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	414 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	415 <xml name="isotopologue_metabolites_list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	416 <param name="metabolites_list" type="select" optional="false" multiple="true"
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	417 label="Select Metabolite(s) to plot (1 Min.). You have to load a abundance file prior to have access to metabolite list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	418 <validator type="length" min="1" message="Please enter at min 1 metabolite"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	419 <options from_dataset="isotop_prop_file">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	420 <column name="ID" index="0"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	421 <column name="value" index="0"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	422 <filter type="unique_value" name="ID" column="0"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	423 <filter type="remove_value" value="ID"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	424 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	425 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	426 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	427 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	428 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	429 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	430 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	431 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	432 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	433 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	434 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	435 <xml name="deg_list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	436 <repeat name="deg_list" title="Deregulated gene set" default="1" min="1">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	437 <param name="input" type="data" format="tabular" label="Deregulated genes set"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	438 <param name="idcol" type="data_column" data_ref="input" label="Column for id" use_header_names="true"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	439 <param name="valuecol" type="data_column" data_ref="input" label="Column for values" use_header_names="true"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	440 <param name="timepoint" type="select" optional="false" multiple="false" label="Browse timepoint from metadata file (1 min.)">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	441 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	442 <column name="timepoint" index="2"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	443 <column name="value" index="2"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	444 <filter type="unique_value" name="timepoint" column="2"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	445 <filter type="remove_value" value="timepoint"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	446 <filter type="sort_by" name="timepoint" column="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	447 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	448 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	449 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	450 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	451 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	452 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	453 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	454 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	455 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	456 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	457 <repeat name="factor_list" title="Conditions" default="2" min="2" max="2" help="Specify conditions to compare from metadata file (for each comparison, the last specified condition is the reference). You have to load a metadata file prior to have access to condition list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	458 <param name="condition" label="Condition" type="select" optional="false" multiple="false">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	459 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	460 <column name="condition" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	461 <column name="value" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	462 <filter type="unique_value" name="condition" column="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	463 <filter type="remove_value" value="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	464 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	465 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	466 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	467 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	468 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	469 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	470 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	471 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	472 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	473 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	474 </repeat>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	475
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	476 </repeat>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	477 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	478 <xml name="plot_abundance_factor_list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	479 <repeat name="plot_abundance_factor_list" title="Conditions" min="1" help="Specify conditions to compare from metadata file (1 min. only if two timepoints are set. 2 max.). You have to load a metadata file prior to have access to condition list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	480 <param name="condition" label="Condition" type="select" optional="false" multiple="false">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	481 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	482 <column name="condition" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	483 <column name="value" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	484 <filter type="unique_value" name="condition" column="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	485 <filter type="remove_value" value="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	486 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	487 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	488 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	489 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	490 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	491 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	492 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	493 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	494 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	495 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	496 </repeat>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	497 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	498 <xml name="plot_factor_list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	499 <repeat name="plot_factor_list" title="Conditions" min="2" help="Specify conditions to compare from metadata file (1 min. only if two timepoints are set. 2 max.). You have to load a metadata file prior to have access to condition list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	500 <param name="condition" label="Condition" type="select" optional="false" multiple="false">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	501 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	502 <column name="condition" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	503 <column name="value" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	504 <filter type="unique_value" name="condition" column="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	505 <filter type="remove_value" value="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	506 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	507 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	508 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	509 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	510 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	511 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	512 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	513 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	514 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	515 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	516 </repeat>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	517 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	518 <xml name="factor_list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	519 <repeat name="factor_list" title="Conditions" min="2" max="2" help="Specify conditions to be taken into account from metadata file (for each comparison, the last specified condition is the reference). You have to load a metadata file prior to have access to condition list">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	520 <param name="condition" label="Condition" type="select" optional="false" multiple="false">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	521 <options from_dataset="metadata_path">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	522 <column name="condition" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	523 <column name="value" index="1"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	524 <filter type="unique_value" name="condition" column="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	525 <filter type="remove_value" value="condition"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	526 </options>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	527 <sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	528 <valid initial="default">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	529 <add preset="string.printable"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	530 <add value="\t"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	531 <remove value="""/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	532 <remove value="'"/>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	533 </valid>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	534 </sanitizer>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	535 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	536 </repeat>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	537 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	538 <xml name="palette">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	539 <param name="palette" type="select" value="pastel" display="radio" label="Select palette colormap to apply to abundance plot." help="For more information see https://seaborn.pydata.org/tutorial/color_palettes.html">
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	540 <option value="pastel" selected="true">pastel</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	541 <option value="deep">deep</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	542 <option value="muted">muted</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	543 <option value="bright">bright</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	544 <option value="dark">dark</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	545 <option value="colorblind">colorblind</option>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	546 </param>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	547 </xml>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	548 <token name="@INIT_PCA@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	549 #import json
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	550 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	551
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	552 mkdir -p data &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	553
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	554 #if $metadata_path:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	555 ln -s '$metadata_path' data/metadata.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	556 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	557 #if $abundance_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	558 ln -s '$abundance_file' data/abundance.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	559 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	560 #if $me_or_frac_contrib_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	561 ln -s '$me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	562 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	563
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	564 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	565 <token name="@INIT_CONFIG@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	566 mkdir -p 'config' &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	567 touch 'config/config.yaml' &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	568 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	569 <token name="@REMOVE_CONFIG@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	570 && rm -r 'config'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	571 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	572 <token name="@INIT_ABUNDANCE_PLOT@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	573
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	574 mkdir -p data &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	575 #if $metadata_path:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	576 ln -s '$metadata_path' data/metadata.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	577 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	578 #if $abundance_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	579 ln -s '$abundance_file' data/abundance.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	580 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	581 #set $axisx = "condition"
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	582 #if str( $output_options.bar_color ) == "condition":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	583 #set $axisx = "timepoint"
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	584 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	585
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	586 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	587 <token name="@INIT_ENRICHMENT_PLOT@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	588
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	589 mkdir -p data &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	590
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	591 #if $metadata_path:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	592 ln -s '$metadata_path' data/metadata.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	593 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	594 #if $me_or_frac_contrib_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	595 ln -s '$me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	596 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	597 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	598 <token name="@INIT_ISOTOPOLOGUE_PLOT@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	599
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	600 mkdir -p data &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	601
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	602 #if $metadata_path:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	603 ln -s '$metadata_path' data/metadata.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	604 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	605 #if $isotop_prop_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	606 ln -s '$isotop_prop_file' data/isotop_prop.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	607 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	608 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	609 <token name="@INIT_BI_ANALYSIS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	610
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	611 mkdir -p data &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	612
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	613 #if $metadata_path:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	614 ln -s '$metadata_path' data/metadata.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	615 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	616
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	617
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	618 #set conditions_MDV_comparison = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	619 #set timepoints_MDV_comparison = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	620 #set conditions_metabolite_time_profiles = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	621
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	622 #if str( $stat_test ) == "pearson":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	623 #silent $conditions_MDV_comparison['isotopologue_proportions']='pearson'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	624 #silent $timepoints_MDV_comparison['isotopologue_proportions']='pearson'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	625 #silent $conditions_metabolite_time_profiles['abundances']='pearson'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	626 #silent $conditions_metabolite_time_profiles['mean_enrichment']='pearson'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	627 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	628 #silent $conditions_MDV_comparison['isotopologue_proportions']='spearman'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	629 #silent $timepoints_MDV_comparison['isotopologue_proportions']='spearman'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	630 #silent $conditions_metabolite_time_profiles['abundances']='spearman'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	631 #silent $conditions_metabolite_time_profiles['mean_enrichment']='spearman'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	632 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	633 #set $impute_values = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	634 #if str( $data_input.data_input_selector ) == "abundance":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	635 #if $data_input.abundance_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	636 ln -s '$data_input.abundance_file' data/abundance.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	637 #silent $impute_values['abundances']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	638 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	639 #elif str( $data_input.data_input_selector ) == "mean_enrichment":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	640 #if $data_input.me_or_frac_contrib_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	641 ln -s '$data_input.me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	642 #silent $impute_values['mean_enrichment']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	643 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	644 #elif str( $data_input.data_input_selector ) == "isotop_prop":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	645 #if $data_input.isotop_prop_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	646 ln -s '$data_input.isotop_prop_file' data/isotop_prop.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	647 #silent $impute_values['isotopologue_proportions']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	648 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	649 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	650 #if $data_input.isotop_abs_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	651 ln -s '$data_input.isotop_abs_file' data/isotop_abs.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	652 #silent $impute_values['isotopologues']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	653 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	654 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	655 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	656 <token name="@INIT_DIFF_ANALYSIS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	657
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	658 mkdir -p data &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	659
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	660 #if $metadata_path:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	661 ln -s '$metadata_path' data/metadata.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	662 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	663
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	664 #set $impute_values = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	665 #if str( $data_input.data_input_selector ) == "abundance":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	666 #if $data_input.abundance_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	667 ln -s '$data_input.abundance_file' data/abundance.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	668 #silent $impute_values['abundances']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	669 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	670 #elif str( $data_input.data_input_selector ) == "mean_enrichment":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	671 #if $data_input.me_or_frac_contrib_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	672 ln -s '$data_input.me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	673 #silent $impute_values['mean_enrichment']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	674 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	675 #elif str( $data_input.data_input_selector ) == "isotop_prop":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	676 #if $data_input.isotop_prop_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	677 ln -s '$data_input.isotop_prop_file' data/isotop_prop.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	678 #silent $impute_values['isotopologue_proportions']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	679 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	680 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	681 #if $data_input.isotop_abs_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	682 ln -s '$data_input.isotop_abs_file' data/isotop_abs.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	683 #silent $impute_values['isotopologues']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	684 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	685 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	686 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	687 <token name="@INIT_METABOLOGRAM@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	688 #import json
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	689 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	690 #import os
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	691 #import csv
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	692 #import subprocess
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	693
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	694 mkdir -p data &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	695
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	696 #if $path_kegg_metabolites:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	697 ln -s '$path_kegg_metabolites' data/pathways_kegg_metabolites.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	698 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	699 #if $path_kegg_transcripts:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	700 ln -s '$path_kegg_transcripts' data/pathways_kegg_transcripts.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	701 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	702
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	703 #if $metadata_path:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	704 ln -s '$metadata_path' data/metadata.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	705 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	706
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	707 #set $impute_values = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	708 #if str( $data_input.data_input_selector ) == "abundance":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	709 #if $data_input.abundance_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	710 ln -s '$data_input.abundance_file' data/abundance.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	711 #silent $impute_values['abundances']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	712 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	713 #else:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	714 #if $data_input.me_or_frac_contrib_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	715 ln -s '$data_input.me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	716 #silent $impute_values['mean_enrichment']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	717 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	718 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	719
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	720 #for $i, $s in enumerate($deg_list)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	721 #set $cpt = str($i+1)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	722 ln -s '${s.input}' data/DEG_comparison'${cpt}'.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	723 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	724
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	725
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	726 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	727 <token name="@INIT_DIFF_MULTIGROUP_ANALYSIS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	728
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	729 mkdir -p data &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	730
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	731 #if $metadata_path:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	732 ln -s '$metadata_path' data/metadata.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	733 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	734
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	735 #set $impute_values = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	736 #if str( $data_input.data_input_selector ) == "abundance":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	737 #if $data_input.abundance_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	738 ln -s '$data_input.abundance_file' data/abundance.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	739 #silent $impute_values['abundances']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	740 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	741 #elif str( $data_input.data_input_selector ) == "mean_enrichment":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	742 #if $data_input.me_or_frac_contrib_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	743 ln -s '$data_input.me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	744 #silent $impute_values['mean_enrichment']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	745 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	746 #elif str( $data_input.data_input_selector ) == "isotop_prop":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	747 #if $data_input.isotop_prop_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	748 ln -s '$data_input.isotop_prop_file' data/isotop_prop.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	749 #silent $impute_values['isotopologue_proportions']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	750 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	751 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	752 #if $data_input.isotop_abs_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	753 ln -s '$data_input.isotop_abs_file' data/isotop_abs.csv &&
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	754 #silent $impute_values['isotopologues']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	755 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	756 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	757 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	758 <token name="@INIT_IMPUTE_VALUES@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	759 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	760 #set $impute_values = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	761 #if $abundance_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	762 #silent $impute_values['abundances']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	763 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	764 #if $me_or_frac_contrib_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	765 #silent $impute_values['mean_enrichment']='min'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	766 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	767 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	768 <token name="@INIT_DATATYPES@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	769 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	770 #set $datatypes_avail = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	771 #if str( $data_input.data_input_selector ) == "abundance":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	772 #if $data_input.abundance_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	773 $datatypes_avail.append(re.sub('"', '', "abundances"))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	774 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	775 #elif str( $data_input.data_input_selector ) == "mean_enrichment":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	776 #if $data_input.me_or_frac_contrib_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	777 $datatypes_avail.append(re.sub('"', '', "mean_enrichment"))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	778 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	779 #elif str( $data_input.data_input_selector ) == "isotop_prop":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	780 #if $data_input.isotop_prop_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	781 $datatypes_avail.append(re.sub('"', '', "isotopologue_proportions"))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	782 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	783 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	784 #if $data_input.isotop_abs_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	785 $datatypes_avail.append(re.sub('"', '', "isotopologues"))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	786 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	787 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	788 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	789 <token name="@INIT_STAT_TEST@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	790 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	791 #set $statistical_test = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	792 #if str( $data_input.data_input_selector ) == "abundance":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	793 #if $data_input.abundance_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	794 #silent $statistical_test['abundances']=str($data_input.stat_test)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	795 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	796 #elif str( $data_input.data_input_selector ) == "mean_enrichment":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	797 #if $data_input.me_or_frac_contrib_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	798 #silent $statistical_test['mean_enrichment']=str($data_input.stat_test)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	799 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	800 #elif str( $data_input.data_input_selector ) == "isotop_prop":
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	801 #if $data_input.isotop_prop_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	802 #silent $statistical_test['isotopologue_proportions']=str($data_input.stat_test)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	803 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	804 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	805 #if $data_input.isotop_abs_file:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	806 #silent $statistical_test['isotopologues']=str($data_input.stat_test)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	807 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	808 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	809 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	810 <token name="@INIT_CONDITIONS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	811 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	812 #set $conds = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	813 #for $co in $conditions:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	814 $conds.append(re.sub('"', '', str($co)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	815 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	816 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	817 <token name="@INIT_PLOT_CONDITIONS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	818 #set $conditions = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	819 #for $i, $s in enumerate($plot_factor_list)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	820 #set $cpt = str($i+1)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	821 $conditions.append(re.sub('"', '', str($s.condition)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	822 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	823 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	824 <token name="@INIT_ABUNDANCE_PLOT_CONDITIONS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	825 #set $conditions = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	826 #for $i, $s in enumerate($plot_abundance_factor_list)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	827 #set $cpt = str($i+1)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	828 $conditions.append(re.sub('"', '', str($s.condition)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	829 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	830 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	831 <token name="@INIT_TIMEPOINTS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	832
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	833 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	834 #set $timepoints = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	835 #for $tp in $timepoint:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	836 $timepoints.append(re.sub('"', '', str($tp)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	837 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	838 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	839 <token name="@INIT_GROUPS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	840 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	841 #set $groups = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	842 $groups.append(re.sub('"', '', str("condition")))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	843 $groups.append(re.sub('"', '', str("timepoint")))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	844
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	845 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	846 <token name="@INIT_ENRICHMENT_METABOLITES@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	847 #import json
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	848 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	849 #set $metabolites = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	850 #for $cp in $compartments:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	851 #silent $metabolites[re.sub('"', '', str($cp))]=list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	852 #for $met in $metabolites_list:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	853 #set tmp_met=re.sub('\,', '%%',str($met))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	854 #set tmp_met_bis=str(re.split('_m', str($tmp_met))[0])
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	855 #set tmp_met_ter=re.sub('%%', '\,',str($tmp_met_bis))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	856 $metabolites[re.sub('"', '', str($cp))].append(re.sub('"', '\'', str(tmp_met_ter)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	857 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	858 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	859 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	860 <token name="@INIT_ISOTOPOLOGUE_METABOLITES@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	861 #set $metabolites = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	862 #for $cp in $compartments:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	863 #silent $metabolites[re.sub('"', '', str($cp))]=list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	864 #for $met in $metabolites_list:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	865 #set tmp_met=re.sub('\,', '--',str($met))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	866 #set tmp_met_bis=str(re.split('_m', str($tmp_met))[0])
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	867 #set tmp_met_ter=re.sub('--', '\,',str($tmp_met_bis))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	868 $metabolites[re.sub('"', '', str($cp))].append(re.sub('"', '\'', str(tmp_met_ter)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	869 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	870 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	871 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	872 <token name="@INIT_MULTIGROUP_COMPARISONS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	873 #set $comparisons = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	874 #for $tp in $timepoint:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	875 #set $ctrl_found=False
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	876 #set $ctrl=""
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	877
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	878 #for $co in $conditions:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	879 #set $sub_comparisons = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	880 #if str($co) in ["Control", "control","ctrl"]:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	881 #set $ctrl_found=True
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	882 #set $ctrl=str($co)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	883 $sub_comparisons.append(re.sub('"', '', str($co)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	884 $sub_comparisons.append(re.sub('"', '', str($tp)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	885 #else:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	886 $sub_comparisons.append(re.sub('"', '', str($co)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	887 $sub_comparisons.append(re.sub('"', '', str($tp)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	888
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	889 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	890 $comparisons.append($sub_comparisons)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	891 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	892 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	893 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	894 <token name="@INIT_CONDITIONS_TIMECOURSE@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	895 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	896 #set $conditions = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	897 #for $i, $s in enumerate($factor_list)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	898 #set $cpt = str($i+1)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	899 $conditions.append(re.sub('"', '', str($s.condition)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	900 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	901
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	902 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	903 <token name="@INIT_BIVAR_COMPARISONS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	904 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	905 #set $conditions = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	906 #for $i, $s in enumerate($plot_factor_list)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	907 #set $cpt = str($i+1)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	908 $conditions.append(re.sub('"', '', str($s.condition)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	909 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	910 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	911 <token name="@INIT_COMPARISONS_METABOLOGRAM@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	912 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	913 #set $conditions = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	914 #set $timepoints = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	915 #set $comparisons = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	916 #for $i, $s in enumerate($deg_list)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	917 #set $cpt = str($i+1)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	918 #set $comparisons_bis = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	919 #for $j, $t in enumerate($s.factor_list)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	920 #set $sub_comparisons = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	921 #if str($t.condition) not in $conditions:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	922 $conditions.append(re.sub('"', '', str($t.condition)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	923 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	924 $sub_comparisons.append(re.sub('"', '', str($t.condition)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	925 $sub_comparisons.append(re.sub('"', '', str($s.timepoint)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	926 $comparisons_bis.append($sub_comparisons)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	927 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	928 $timepoints.append(re.sub('"', '', str($s.timepoint)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	929 $comparisons.append($comparisons_bis)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	930 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	931
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	932
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	933
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	934 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	935 <token name="@INIT_COMPARISONS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	936 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	937 #set $conds = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	938 #for $co in $conditions:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	939 $conds.append(re.sub('"', '', str($co)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	940 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	941 #set $timepoints = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	942 #for $tp in $timepoint:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	943 $timepoints.append(re.sub('"', '', str($tp)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	944 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	945
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	946 #set $comparisons = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	947 #if len($conds) > 1:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	948 #if len($timepoints) > 0:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	949 #for $tp in $timepoint:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	950 #set $ctrl_found=False
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	951 #set $ctrl=""
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	952 #set $comparisons_bis = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	953 #for $co in $conditions:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	954 #set $sub_comparisons = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	955 #if str($co) in ["'Control'", "'control'", "'ctrl'"]:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	956 #set $ctrl_found=True
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	957 #set $ctrl=str($co)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	958 #else:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	959 $sub_comparisons.append(re.sub('"', '', str($co)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	960 $sub_comparisons.append(re.sub('"', '', str($tp)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	961
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	962 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	963 $comparisons_bis.append($sub_comparisons)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	964 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	965
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	966 #if $ctrl_found:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	967 $sub_comparisons.append(str($ctrl))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	968 $sub_comparisons.append(str($tp))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	969 $comparisons_bis.append($sub_comparisons)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	970 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	971
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	972 $comparisons.append($comparisons_bis)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	973 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	974 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	975 #for $co in $conditions:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	976 $comparisons.append(re.sub('"', '', str($co)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	977 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	978 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	979
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	980 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	981 #if len($conds) > 0:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	982 #if len($timepoints) > 1:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	983 #for $co in $conditions:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	984 #set $comparisons_bis = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	985 #for $tp in $timepoint:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	986 #set $sub_comparisons = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	987 $sub_comparisons.append(re.sub('"', '', str($co)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	988 $sub_comparisons.append(re.sub('"', '', str($tp)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	989 $comparisons_bis.append($sub_comparisons)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	990 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	991 $comparisons.append($comparisons_bis)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	992 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	993 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	994 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	995 #for $tp in $timepoint:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	996 $comparisons.append(re.sub('"', '', str($tp)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	997 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	998 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	999 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1000 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1001 <token name="@INIT_DIFF_ANALYSIS_COMPARISONS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1002 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1003 #set $conditions = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1004 #for $i, $s in enumerate($factor_list)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1005 #set $cpt = str($i+1)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1006 $conditions.append(re.sub('"', '', str($s.condition)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1007 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1008
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1009 #set $timepoints = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1010 #for $tp in $timepoint:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1011 $timepoints.append(re.sub('"', '', str($tp)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1012 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1013
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1014 #set $comparisons = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1015 #if len($conditions) > 1:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1016 #if len($timepoints) > 0:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1017 #for $tp in $timepoint:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1018 #set $ctrl_found=False
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1019 #set $ctrl=""
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1020 #set $comparisons_bis = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1021
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1022 #for $co in $conditions:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1023 #set $sub_comparisons = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1024 #if str($co) in ["'Control'", "'control'", "'ctrl'"]:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1025 #set $ctrl_found=True
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1026 #set $ctrl=str($co)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1027 #else:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1028 $sub_comparisons.append(re.sub('"', '', str($co)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1029 $sub_comparisons.append(re.sub('"', '', str($tp)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1030
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1031 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1032 $comparisons_bis.append($sub_comparisons)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1033 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1034
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1035 #if $ctrl_found:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1036 $sub_comparisons.append(str($ctrl))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1037 $sub_comparisons.append(str($tp))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1038 $comparisons_bis.append($sub_comparisons)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1039 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1040
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1041 $comparisons.append($comparisons_bis)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1042 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1043 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1044 #for $co in $conditions:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1045 $comparisons.append(re.sub('"', '', str($co)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1046 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1047 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1048
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1049 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1050 #if len($conditions) > 0:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1051 #if len($timepoints) > 1:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1052 #for $co in $conditions:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1053 #set $comparisons_bis = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1054 #for $tp in $timepoint:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1055 #set $sub_comparisons = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1056 $sub_comparisons.append(re.sub('"', '', str($co)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1057 $sub_comparisons.append(re.sub('"', '', str($tp)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1058 $comparisons_bis.append($sub_comparisons)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1059 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1060 $comparisons.append($comparisons_bis)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1061 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1062 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1063 #else
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1064 #for $tp in $timepoint:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1065 $comparisons.append(re.sub('"', '', str($tp)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1066 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1067 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1068 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1069 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1070 <token name="@INIT_TRANSCRIPTS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1071 #import re
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1072 #import os
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1073 #import subprocess
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1074 #set $transcripts = list()
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1075
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1076 #for $i, $s in enumerate($deg_list)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1077 #set $cpt = str($i+1)
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1078 $transcripts.append(re.sub('"', '', "DEG_comparison"+str($i+1)))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1079 #set $deg_one_values = os.fsdecode(subprocess.check_output('head -n1 ' + str($s.input) + '\| cut -f' + str($s.valuecol), shell=True))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1080 #set $deg_one_id = os.fsdecode(subprocess.check_output('head -n1 ' + str($s.input) + '\| cut -f' + str($s.idcol), shell=True))
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1081 #end for
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1082 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1083 <token name="@INIT_PATHWAYS@"><![CDATA[
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1084 #set $pathways = {}
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1085 #if $path_kegg_metabolites:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1086 #silent $pathways['metabolites']='pathways_kegg_metabolites'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1087 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1088 #if $path_kegg_transcripts:
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1089 #silent $pathways['transcripts']='pathways_kegg_transcripts'
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1090 #end if
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1091 ]]></token>
58498838f0e0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: diff changeset	1092 </macros>

Mercurial > repos > iuc > dimet_pca_plot

annotate macros.xml @ 1:78fd9274a21b draft default tip