dimet_bivariate_analysis: macros.xml annotate

annotate macros.xml @ 4:f070b08ff139 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5

author	iuc
date	Fri, 21 Jun 2024 18:49:06 +0000
parents	f2ce3a338418
children	fe3500a01254

rev	line source
0 89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1 <macros>
2 ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	2 <token name="@TOOL_VERSION@">0.2.4</token>
4 f070b08ff139 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: 3 diff changeset	3 <token name="@VERSION_SUFFIX@">3</token>
0 89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	4 <xml name="requirements">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	5 <requirements>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	6 <requirement type="package" version="@TOOL_VERSION@">dimet</requirement>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	7 </requirements>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	8 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	9 <xml name="statistical_test_for_multigroup">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	11 <option value="KW">Kruskal-Wallis</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	12 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	13 </xml>
2 ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	14 <xml name="statistical_test_for_bivariate_analysis">
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 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">
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	16 <option value="pearson">pearson</option>
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	17 <option value="spearman">spearman</option>
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	18 </param>
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	19 </xml>
0 89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	20 <xml name="statistical_test">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	21 <conditional name="statistics">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	23 <option value="parametric">parametric</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	24 <option value="non-parametric-rank" selected="true">non-parametric (rank based)</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	25 <option value="non-parametric-distribution">non-parametric (distribution based)</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	26 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	27 <when value="parametric">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	29 <option value="Tt" selected="true">t-test</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	30 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	31 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	32 <when value="non-parametric-rank">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	34 <option value="MW">Mann Whitney</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	35 <option value="KW">Kruskal-Wallis</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	36 <option value="ranksum" selected="true">Wilcoxon's rank sum test</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	37 <option value="Wcox">Wilcoxon signed-rank test</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	38 <option value="BrMu">Brunner-Munzel test</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	39 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	40 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	41 <when value="non-parametric-distribution">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	43 <option value="prm-scipy" selected="true">permutations test</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	45 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	46 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	47 </conditional>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	48
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	49 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	50 <xml name="citations">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	51 <citations>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	52 <citation type="bibtex">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	53 @software{Galvis_Rodriguez_DIMet,
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	54 author = {Galvis Rodriguez, Johanna and Guyon, Joris and Dartigues, Benjamin and Specque, Florian and Daubon, Thomas and Karkar, Slim and Nikolski, Macha},
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	55 license = {MIT},
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	56 title = {{DIMet}},
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	57 url = {https://github.com/cbib/DIMet}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	58 }
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	59
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	60 </citation>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	61 </citations>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	62
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	63 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	64 <xml name="metadata_file_macros">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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."/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	66 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	67 <xml name="abundance_file_macros">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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)"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	69 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	70 <xml name="enrichment_file_macros">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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)"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	72 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	73 <xml name="isotopologue_prop_file_macros">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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)."/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	75 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	76 <xml name="isotopologue_abs_file_macros">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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)."/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	78 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	79 <xml name="input_parameters_pca">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	80 <expand macro="abundance_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f 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"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	82 <expand macro="metadata_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	83 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	84 <xml name="input_parameters_abundance">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	85 <expand macro="abundance_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	86 <expand macro="metadata_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	87 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	88 <xml name="input_parameters_enrichment">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	89 <expand macro="enrichment_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	90 <expand macro="metadata_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	91 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	92 <xml name="input_parameters_isotopologue">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	93 <expand macro="isotopologue_prop_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	94 <expand macro="metadata_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	95 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	96 <xml name="input_parameters_metabologram">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	97 <conditional name="data_input">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	98 <param name="data_input_selector" type="select" label="Abundance, Enrichment or Isotopologues quantification files" help="Select between raw abundance and mean enrichment files">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	99 <option value="abundance" selected="True">abundance</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	100 <option value="mean_enrichment">mean_enrichment</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	101 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	102 <when value="abundance">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	103 <expand macro="abundance_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	104 <param name="metabolites_list" type="select" optional="false" multiple="true"
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	105 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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	106 <validator type="length" min="1" message="Please enter at max 2 compartments"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	107 <options from_dataset="abundance_file">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	108 <column name="metabolite_or_isotopologue" index="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	109 <column name="value" index="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	110 <filter type="unique_value" name="metabolite_or_isotopologue" column="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	111 <filter type="remove_value" value="metabolite_or_isotopologue"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	112 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	113 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	114 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	115 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	116 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	117 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	118 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	119 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	120 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	121 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	122 <expand macro="statistical_test"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	123 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	124 <when value="mean_enrichment">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	125 <expand macro="enrichment_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	126 <param name="metabolites_list" type="select" optional="false" multiple="true"
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	127 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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	128 <validator type="length" min="1" message="Please enter at max 2 compartments"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	129 <options from_dataset="me_or_frac_contrib_file">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	130 <column name="metabolite_or_isotopologue" index="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	131 <column name="value" index="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	132 <filter type="unique_value" name="metabolite_or_isotopologue" column="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	133 <filter type="remove_value" value="metabolite_or_isotopologue"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	134 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	135 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	136 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	137 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	138 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	139 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	140 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	141 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	142 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	143 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	144 <expand macro="statistical_test"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	145 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	146 </conditional>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	147 <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)"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	148 <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)"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	149 <expand macro="metadata_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	150 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	151 <xml name="input_parameters_bivar_analysis">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	152 <conditional name="data_input">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	153 <param name="data_input_selector" type="select" label="Abundance, Enrichment or Isotopologues quantification files" help="Select between raw abundance, mean enrichment or isotopologue files">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	154 <option value="abundance" selected="True">abundance</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	155 <option value="mean_enrichment">mean_enrichment</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	156 <option value="isotop_prop">isotop_prop</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	157 <option value="isotop_abs">isotop_abs</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	158 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	159 <when value="abundance">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	160 <expand macro="abundance_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	161
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	162 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	163 <when value="mean_enrichment">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	164 <expand macro="enrichment_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	165 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	166 <when value="isotop_prop">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	167 <expand macro="isotopologue_prop_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	168 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	169 <when value="isotop_abs">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	170 <expand macro="isotopologue_abs_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	171 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	172 </conditional>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	173 <expand macro="metadata_file_macros"/>
2 ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	174 <expand macro="statistical_test_for_bivariate_analysis"/>
0 89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	175 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	176 <xml name="input_parameters_diff_analysis">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	177 <conditional name="data_input">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	178 <param name="data_input_selector" type="select" label="Abundance, Enrichment or Isotopologues quantification files" help="Select between raw abundance, mean enrichment or isotopologue files">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	179 <option value="abundance" selected="True">abundance</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	180 <option value="mean_enrichment">mean_enrichment</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	181 <option value="isotop_prop">isotop_prop</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	182 <option value="isotop_abs">isotop_abs</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	183 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	184 <when value="abundance">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	185 <expand macro="abundance_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	186 <expand macro="statistical_test"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	187
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	188 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	189 <when value="mean_enrichment">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	190 <expand macro="enrichment_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	191 <expand macro="statistical_test"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	192 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	193 <when value="isotop_prop">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	194 <expand macro="isotopologue_prop_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	195 <expand macro="statistical_test"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	196 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	197 <when value="isotop_abs">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	198 <expand macro="isotopologue_abs_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	199 <expand macro="statistical_test"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	200 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	201 </conditional>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	202 <expand macro="metadata_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	203 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	204 <xml name="input_parameters_multi_diff_analysis">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	205 <conditional name="data_input">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	206 <param name="data_input_selector" type="select" label="Abundance, Enrichment or Isotopologues quantification files" help="Select between raw abundance, mean enrichment or isotopologue files">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	207 <option value="abundance" selected="True">abundance</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	208 <option value="mean_enrichment">mean_enrichment</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	209 <option value="isotop_prop">isotop_prop</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	210 <option value="isotop_abs">isotop_abs</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	211 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	212 <when value="abundance">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	213 <expand macro="abundance_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	214 <expand macro="statistical_test_for_multigroup"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	215
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	216 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	217 <when value="mean_enrichment">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	218 <expand macro="enrichment_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	219 <expand macro="statistical_test_for_multigroup"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	220 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	221 <when value="isotop_prop">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	222 <expand macro="isotopologue_prop_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	223 <expand macro="statistical_test_for_multigroup"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	224 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	225 <when value="isotop_abs">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	226 <expand macro="isotopologue_abs_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	227 <expand macro="statistical_test_for_multigroup"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	228 </when>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	229 </conditional>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	230 <expand macro="metadata_file_macros"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	231 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	232 <xml name="suffix">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	233 <param name="suffix" type="text" optional="false" label="suffix to add to output files" >
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	234 <sanitizer invalid_char="">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	235 <valid initial="string.ascii_letters,string.digits">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	236 <add value="_" />
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	237 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	238 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	239 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	240 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	241 <xml name="conditions">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	242 <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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	243 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	244 <column name="condition" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	245 <column name="value" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	246 <filter type="unique_value" name="condition" column="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	247 <filter type="remove_value" value="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	248 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	249 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	250 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	251 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	252 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	253 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	254 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	255 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	256 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	257 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	258 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	259 <xml name="conditions_multigroup">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	260 <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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	261 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	262 <column name="condition" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	263 <column name="value" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	264 <filter type="unique_value" name="condition" column="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	265 <filter type="remove_value" value="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	266 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	267 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	268 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	269 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	270 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	271 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	272 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	273 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	274 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	275 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	276 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	277 <xml name="timepoint_multigroup">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	278 <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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	279 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	280 <column name="timepoint" index="2"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	281 <column name="value" index="2"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	282 <filter type="unique_value" name="timepoint" column="2"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	283 <filter type="remove_value" value="timepoint"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	284 <filter type="sort_by" name="timepoint" column="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	285 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	286 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	287 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	288 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	289 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	290 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	291 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	292 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	293 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	294 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	295 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	296 <xml name="timepoint">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	297 <param name="timepoint" type="select" optional="false" multiple="true" label="Browse timepoint from metadata file (1 min.)">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	298 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	299 <column name="timepoint" index="2"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	300 <column name="value" index="2"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	301 <filter type="unique_value" name="timepoint" column="2"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	302 <filter type="remove_value" value="timepoint"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	303 <filter type="sort_by" name="timepoint" column="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	304 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	305 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	306 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	307 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	308 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	309 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	310 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	311 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	312 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	313 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	314 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	315 <xml name="grouping">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	316 <param name="grouping" type="select" optional="false" multiple="true" label="Browse group to compare">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	317 <option value="condition" selected="true">condition</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	318 <option value="timepoint" selected="true">timepoint</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	319 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	320 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	321 <xml name="correction_method">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	322 <param name="correction_method" type="select" value="bonferroni" display="radio" label="Select multiple test correction to apply" help="Please enter at max 1 method">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	323 <option value="bonferroni">bonferroni</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	324 <option value="holm-sidak">holm-sidak</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	325 <option value="holm">holm</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	326 <option value="simes-hochberg">simes-hochberg</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	327 <option value="hommel">hommel</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	328 <option value="fdr_bh">fdr_bh</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	329 <option value="fdr_by">fdr_by</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	330 <option value="fdr_tsbh">fdr_tsbh</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	331 <option value="fdr_tsbky">fdr_tsbky</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	332 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	333 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	334 <xml name="compartments_enrichment">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	335 <param name="compartments" type="select" optional="false" multiple="true"
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	336 label="Browse compartments from metadata file (All needed). You have to load a metadata file prior to have access to compartments">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	337 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	338 <column name="compartment" index="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	339 <column name="value" index="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	340 <filter type="unique_value" name="compartment" column="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	341 <filter type="remove_value" value="compartment"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	342 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	343 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	344 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	345 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	346 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	347 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	348 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	349 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	350 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	351 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	352 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	353 <xml name="compartments_abundance">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	354 <param name="compartments" type="select" optional="false" multiple="true"
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	355 label="Browse compartments from metadata file (All needed). You have to load a metadata file prior to have access to compartments">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	356 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	357 <column name="compartment" index="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	358 <column name="value" index="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	359 <filter type="unique_value" name="compartment" column="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	360 <filter type="remove_value" value="compartment"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	361 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	362 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	363 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	364 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	365 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	366 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	367 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	368 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	369 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	370 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	371 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	372 <xml name="compartments_metabologram">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	373 <param name="compartments" type="select" optional="false" multiple="false"
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	374 label="Browse compartments from metadata file (1 max.). You have to load a metadata file prior to have access to compartments">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	375 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	376 <column name="compartment" index="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	377 <column name="value" index="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	378 <filter type="unique_value" name="compartment" column="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	379 <filter type="remove_value" value="compartment"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	380 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	381 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	382 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	383 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	384 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	385 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	386 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	387 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	388 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	389 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	390 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	391 <xml name="compartments">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	392 <param name="compartments" type="select" optional="false" multiple="true"
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	393 label="Browse compartments from metadata file (1 min.). You have to load a metadata file prior to have access to compartments">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	394 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	395 <column name="compartment" index="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	396 <column name="value" index="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	397 <filter type="unique_value" name="compartment" column="4"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	398 <filter type="remove_value" value="compartment"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	399 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	400 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	401 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	402 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	403 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	404 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	405 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	406 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	407 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	408 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	409 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	410 <xml name="abundance_metabolites_list">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	411 <param name="metabolites_list" type="select" optional="false" multiple="true"
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	412 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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	413 <validator type="length" min="1" message="Please enter at max 2 compartments"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	414 <options from_dataset="abundance_file">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	415 <column name="metabolite_or_isotopologue" index="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	416 <column name="value" index="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	417 <filter type="unique_value" name="metabolite_or_isotopologue" column="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	418 <filter type="remove_value" value="metabolite_or_isotopologue"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	419 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	420 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	421 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	422 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	423 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	424 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	425 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	426 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	427 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	428 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	429 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	430 <xml name="enrichment_metabolites_list">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	431 <param name="metabolites_list" type="select" optional="false" multiple="true"
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	432 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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	433 <validator type="length" min="1" message="Please enter at min 1 metabolite"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	434 <options from_dataset="me_or_frac_contrib_file">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	435 <column name="ID" index="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	436 <column name="value" index="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	437 <filter type="unique_value" name="ID" column="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	438 <filter type="remove_value" value="ID"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	439 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	440 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	441 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	442 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	443 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	444 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	445 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	446 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	447 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	448 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	449 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	450 <xml name="isotopologue_metabolites_list">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	451 <param name="metabolites_list" type="select" optional="false" multiple="true"
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	452 label="Select Metabolite(s) to plot (1 Min.). You have to load a abundance file prior to have access to metabolite list">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	453 <validator type="length" min="1" message="Please enter at min 1 metabolite"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	454 <options from_dataset="isotop_prop_file">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	455 <column name="ID" index="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	456 <column name="value" index="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	457 <filter type="unique_value" name="ID" column="0"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	458 <filter type="remove_value" value="ID"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	459 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	460 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	461 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	462 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	463 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	464 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	465 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	466 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	467 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	468 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	469 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	470 <xml name="deg_list">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	471 <repeat name="deg_list" title="Deregulated gene set" default="1" min="1">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	472 <param name="input" type="data" format="tabular" label="Deregulated genes set"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	473 <param name="idcol" type="data_column" data_ref="input" label="Column for id" use_header_names="true"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	474 <param name="valuecol" type="data_column" data_ref="input" label="Column for values" use_header_names="true"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	475 <param name="timepoint" type="select" optional="false" multiple="false" label="Browse timepoint from metadata file (1 min.)">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	476 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	477 <column name="timepoint" index="2"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	478 <column name="value" index="2"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	479 <filter type="unique_value" name="timepoint" column="2"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	480 <filter type="remove_value" value="timepoint"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	481 <filter type="sort_by" name="timepoint" column="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	482 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	483 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	484 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	485 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	486 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	487 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	488 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	489 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	490 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	491 </param>
3 f2ce3a338418 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit b74312f0a6cb28e204f8633453e493fa0b2c89d8 iuc parents: 2 diff changeset	492 <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">
0 89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	493 <param name="condition" label="Condition" type="select" optional="false" multiple="false">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	494 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	495 <column name="condition" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	496 <column name="value" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	497 <filter type="unique_value" name="condition" column="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	498 <filter type="remove_value" value="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	499 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	500 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	501 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	502 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	503 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	504 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	505 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	506 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	507 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	508 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	509 </repeat>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	510
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	511 </repeat>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	512 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	513 <xml name="plot_abundance_factor_list">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	514 <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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	515 <param name="condition" label="Condition" type="select" optional="false" multiple="false">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	516 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	517 <column name="condition" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	518 <column name="value" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	519 <filter type="unique_value" name="condition" column="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	520 <filter type="remove_value" value="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	521 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	522 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	523 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	524 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	525 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	526 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	527 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	528 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	529 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	530 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	531 </repeat>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	532 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	533 <xml name="plot_factor_list">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	534 <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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	535 <param name="condition" label="Condition" type="select" optional="false" multiple="false">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	536 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	537 <column name="condition" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	538 <column name="value" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	539 <filter type="unique_value" name="condition" column="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	540 <filter type="remove_value" value="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	541 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	542 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	543 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	544 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	545 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	546 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	547 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	548 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	549 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	550 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	551 </repeat>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	552 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	553 <xml name="factor_list">
3 f2ce3a338418 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit b74312f0a6cb28e204f8633453e493fa0b2c89d8 iuc parents: 2 diff changeset	554 <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">
0 89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	555 <param name="condition" label="Condition" type="select" optional="false" multiple="false">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	556 <options from_dataset="metadata_path">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	557 <column name="condition" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	558 <column name="value" index="1"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	559 <filter type="unique_value" name="condition" column="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	560 <filter type="remove_value" value="condition"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	561 </options>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	562 <sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	563 <valid initial="default">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	564 <add preset="string.printable"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	565 <add value="\t"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	566 <remove value="""/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	567 <remove value="'"/>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	568 </valid>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	569 </sanitizer>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	570 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	571 </repeat>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	572 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	573 <xml name="palette">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	574 <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">
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	575 <option value="pastel" selected="true">pastel</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	576 <option value="deep">deep</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	577 <option value="muted">muted</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	578 <option value="bright">bright</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	579 <option value="dark">dark</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	580 <option value="colorblind">colorblind</option>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	581 </param>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	582 </xml>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	583 <token name="@INIT_PCA@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	584 #import json
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	585 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	586
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	587 mkdir -p data &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	588
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	589 #if $metadata_path:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	590 ln -s '$metadata_path' data/metadata.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	591 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	592 #if $abundance_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	593 ln -s '$abundance_file' data/abundance.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	594 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	595 #if $me_or_frac_contrib_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	596 ln -s '$me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	597 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	598
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	599 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	600 <token name="@INIT_CONFIG@"><![CDATA[
4 f070b08ff139 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: 3 diff changeset	601 mkdir -p 'config' &&
f070b08ff139 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: 3 diff changeset	602 touch 'config/config.yaml' &&
0 89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	603 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	604 <token name="@REMOVE_CONFIG@"><![CDATA[
4 f070b08ff139 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 3dba8748fbc8cc8e89ffc08e5febe0a0527a96a5 iuc parents: 3 diff changeset	605 && rm -r 'config'
0 89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	606 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	607 <token name="@INIT_ABUNDANCE_PLOT@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	608
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	609 mkdir -p data &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	610 #if $metadata_path:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	611 ln -s '$metadata_path' data/metadata.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	612 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	613 #if $abundance_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	614 ln -s '$abundance_file' data/abundance.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	615 #end if
3 f2ce3a338418 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit b74312f0a6cb28e204f8633453e493fa0b2c89d8 iuc parents: 2 diff changeset	616 #set $axisx = "condition"
f2ce3a338418 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit b74312f0a6cb28e204f8633453e493fa0b2c89d8 iuc parents: 2 diff changeset	617 #if str( $output_options.bar_color ) == "condition":
f2ce3a338418 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit b74312f0a6cb28e204f8633453e493fa0b2c89d8 iuc parents: 2 diff changeset	618 #set $axisx = "timepoint"
f2ce3a338418 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit b74312f0a6cb28e204f8633453e493fa0b2c89d8 iuc parents: 2 diff changeset	619 #end if
f2ce3a338418 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit b74312f0a6cb28e204f8633453e493fa0b2c89d8 iuc parents: 2 diff changeset	620
0 89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	621 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	622 <token name="@INIT_ENRICHMENT_PLOT@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	623
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	624 mkdir -p data &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	625
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	626 #if $metadata_path:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	627 ln -s '$metadata_path' data/metadata.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	628 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	629 #if $me_or_frac_contrib_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	630 ln -s '$me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	631 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	632 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	633 <token name="@INIT_ISOTOPOLOGUE_PLOT@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	634
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	635 mkdir -p data &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	636
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	637 #if $metadata_path:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	638 ln -s '$metadata_path' data/metadata.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	639 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	640 #if $isotop_prop_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	641 ln -s '$isotop_prop_file' data/isotop_prop.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	642 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	643 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	644 <token name="@INIT_BI_ANALYSIS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	645
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	646 mkdir -p data &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	647
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	648 #if $metadata_path:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	649 ln -s '$metadata_path' data/metadata.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	650 #end if
2 ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	651
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	652
0 89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	653 #set conditions_MDV_comparison = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	654 #set timepoints_MDV_comparison = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	655 #set conditions_metabolite_time_profiles = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	656
2 ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	657 #if str( $stat_test ) == "pearson":
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	658 #silent $conditions_MDV_comparison['isotopologue_proportions']='pearson'
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	659 #silent $timepoints_MDV_comparison['isotopologue_proportions']='pearson'
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	660 #silent $conditions_metabolite_time_profiles['abundances']='pearson'
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	661 #silent $conditions_metabolite_time_profiles['mean_enrichment']='pearson'
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	662 #else
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	663 #silent $conditions_MDV_comparison['isotopologue_proportions']='spearman'
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	664 #silent $timepoints_MDV_comparison['isotopologue_proportions']='spearman'
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	665 #silent $conditions_metabolite_time_profiles['abundances']='spearman'
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	666 #silent $conditions_metabolite_time_profiles['mean_enrichment']='spearman'
ed01c0809ae8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit afc87f0254b4399b71e53735966032ba1a32434d iuc parents: 1 diff changeset	667 #end if
0 89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	668 #set $impute_values = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	669 #if str( $data_input.data_input_selector ) == "abundance":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	670 #if $data_input.abundance_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	671 ln -s '$data_input.abundance_file' data/abundance.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	672 #silent $impute_values['abundances']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	673 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	674 #elif str( $data_input.data_input_selector ) == "mean_enrichment":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	675 #if $data_input.me_or_frac_contrib_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	676 ln -s '$data_input.me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	677 #silent $impute_values['mean_enrichment']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	678 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	679 #elif str( $data_input.data_input_selector ) == "isotop_prop":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	680 #if $data_input.isotop_prop_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	681 ln -s '$data_input.isotop_prop_file' data/isotop_prop.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	682 #silent $impute_values['isotopologue_proportions']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	683 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	684 #else
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	685 #if $data_input.isotop_abs_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	686 ln -s '$data_input.isotop_abs_file' data/isotop_abs.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	687 #silent $impute_values['isotopologues']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	688 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	689 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	690 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	691 <token name="@INIT_DIFF_ANALYSIS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	692
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	693 mkdir -p data &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	694
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	695 #if $metadata_path:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	696 ln -s '$metadata_path' data/metadata.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	697 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	698
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	699 #set $impute_values = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	700 #if str( $data_input.data_input_selector ) == "abundance":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	701 #if $data_input.abundance_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	702 ln -s '$data_input.abundance_file' data/abundance.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	703 #silent $impute_values['abundances']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	704 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	705 #elif str( $data_input.data_input_selector ) == "mean_enrichment":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	706 #if $data_input.me_or_frac_contrib_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	707 ln -s '$data_input.me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	708 #silent $impute_values['mean_enrichment']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	709 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	710 #elif str( $data_input.data_input_selector ) == "isotop_prop":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	711 #if $data_input.isotop_prop_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	712 ln -s '$data_input.isotop_prop_file' data/isotop_prop.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	713 #silent $impute_values['isotopologue_proportions']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	714 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	715 #else
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	716 #if $data_input.isotop_abs_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	717 ln -s '$data_input.isotop_abs_file' data/isotop_abs.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	718 #silent $impute_values['isotopologues']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	719 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	720 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	721 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	722 <token name="@INIT_METABOLOGRAM@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	723 #import json
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	724 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	725 #import os
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	726 #import csv
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	727 #import subprocess
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	728
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	729 mkdir -p data &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	730
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	731 #if $path_kegg_metabolites:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	732 ln -s '$path_kegg_metabolites' data/pathways_kegg_metabolites.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	733 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	734 #if $path_kegg_transcripts:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	735 ln -s '$path_kegg_transcripts' data/pathways_kegg_transcripts.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	736 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	737
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	738 #if $metadata_path:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	739 ln -s '$metadata_path' data/metadata.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	740 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	741
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	742 #set $impute_values = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	743 #if str( $data_input.data_input_selector ) == "abundance":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	744 #if $data_input.abundance_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	745 ln -s '$data_input.abundance_file' data/abundance.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	746 #silent $impute_values['abundances']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	747 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	748 #else:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	749 #if $data_input.me_or_frac_contrib_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	750 ln -s '$data_input.me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	751 #silent $impute_values['mean_enrichment']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	752 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	753 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	754
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	755 #for $i, $s in enumerate($deg_list)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	756 #set $cpt = str($i+1)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	757 ln -s '${s.input}' data/DEG_comparison'${cpt}'.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	758 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	759
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	760
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	761 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	762 <token name="@INIT_DIFF_MULTIGROUP_ANALYSIS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	763
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	764 mkdir -p data &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	765
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	766 #if $metadata_path:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	767 ln -s '$metadata_path' data/metadata.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	768 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	769
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	770 #set $impute_values = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	771 #if str( $data_input.data_input_selector ) == "abundance":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	772 #if $data_input.abundance_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	773 ln -s '$data_input.abundance_file' data/abundance.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	774 #silent $impute_values['abundances']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	775 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	776 #elif str( $data_input.data_input_selector ) == "mean_enrichment":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	777 #if $data_input.me_or_frac_contrib_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	778 ln -s '$data_input.me_or_frac_contrib_file' data/me_or_frac_contrib.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	779 #silent $impute_values['mean_enrichment']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	780 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	781 #elif str( $data_input.data_input_selector ) == "isotop_prop":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	782 #if $data_input.isotop_prop_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	783 ln -s '$data_input.isotop_prop_file' data/isotop_prop.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	784 #silent $impute_values['isotopologue_proportions']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	785 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	786 #else
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	787 #if $data_input.isotop_abs_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	788 ln -s '$data_input.isotop_abs_file' data/isotop_abs.csv &&
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	789 #silent $impute_values['isotopologues']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	790 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	791 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	792 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	793 <token name="@INIT_IMPUTE_VALUES@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	794 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	795 #set $impute_values = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	796 #if $abundance_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	797 #silent $impute_values['abundances']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	798 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	799 #if $me_or_frac_contrib_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	800 #silent $impute_values['mean_enrichment']='min'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	801 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	802 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	803 <token name="@INIT_DATATYPES@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	804 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	805 #set $datatypes_avail = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	806 #if str( $data_input.data_input_selector ) == "abundance":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	807 #if $data_input.abundance_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	808 $datatypes_avail.append(re.sub('"', '', "abundances"))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	809 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	810 #elif str( $data_input.data_input_selector ) == "mean_enrichment":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	811 #if $data_input.me_or_frac_contrib_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	812 $datatypes_avail.append(re.sub('"', '', "mean_enrichment"))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	813 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	814 #elif str( $data_input.data_input_selector ) == "isotop_prop":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	815 #if $data_input.isotop_prop_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	816 $datatypes_avail.append(re.sub('"', '', "isotopologue_proportions"))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	817 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	818 #else
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	819 #if $data_input.isotop_abs_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	820 $datatypes_avail.append(re.sub('"', '', "isotopologues"))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	821 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	822 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	823 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	824 <token name="@INIT_STAT_TEST@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	825 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	826 #set $statistical_test = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	827 #if str( $data_input.data_input_selector ) == "abundance":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	828 #if $data_input.abundance_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	829 #silent $statistical_test['abundances']=str($data_input.stat_test)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	830 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	831 #elif str( $data_input.data_input_selector ) == "mean_enrichment":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	832 #if $data_input.me_or_frac_contrib_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	833 #silent $statistical_test['mean_enrichment']=str($data_input.stat_test)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	834 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	835 #elif str( $data_input.data_input_selector ) == "isotop_prop":
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	836 #if $data_input.isotop_prop_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	837 #silent $statistical_test['isotopologue_proportions']=str($data_input.stat_test)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	838 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	839 #else
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	840 #if $data_input.isotop_abs_file:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	841 #silent $statistical_test['isotopologues']=str($data_input.stat_test)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	842 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	843 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	844 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	845 <token name="@INIT_CONDITIONS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	846 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	847 #set $conds = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	848 #for $co in $conditions:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	849 $conds.append(re.sub('"', '', str($co)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	850 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	851 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	852 <token name="@INIT_PLOT_CONDITIONS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	853 #set $conditions = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	854 #for $i, $s in enumerate($plot_factor_list)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	855 #set $cpt = str($i+1)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	856 $conditions.append(re.sub('"', '', str($s.condition)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	857 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	858 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	859 <token name="@INIT_ABUNDANCE_PLOT_CONDITIONS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	860 #set $conditions = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	861 #for $i, $s in enumerate($plot_abundance_factor_list)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	862 #set $cpt = str($i+1)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	863 $conditions.append(re.sub('"', '', str($s.condition)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	864 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	865 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	866 <token name="@INIT_TIMEPOINTS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	867
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	868 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	869 #set $timepoints = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	870 #for $tp in $timepoint:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	871 $timepoints.append(re.sub('"', '', str($tp)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	872 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	873 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	874 <token name="@INIT_GROUPS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	875 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	876 #set $groups = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	877 $groups.append(re.sub('"', '', str("condition")))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	878 $groups.append(re.sub('"', '', str("timepoint")))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	879
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	880 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	881 <token name="@INIT_ENRICHMENT_METABOLITES@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	882 #import json
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	883 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	884 #set $metabolites = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	885 #for $cp in $compartments:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	886 #silent $metabolites[re.sub('"', '', str($cp))]=list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	887 #for $met in $metabolites_list:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	888 #set tmp_met=re.sub('\,', '%%',str($met))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	889 #set tmp_met_bis=str(re.split('_m', str($tmp_met))[0])
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	890 #set tmp_met_ter=re.sub('%%', '\,',str($tmp_met_bis))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	891 $metabolites[re.sub('"', '', str($cp))].append(re.sub('"', '\'', str(tmp_met_ter)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	892 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	893 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	894 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	895 <token name="@INIT_ISOTOPOLOGUE_METABOLITES@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	896 #set $metabolites = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	897 #for $cp in $compartments:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	898 #silent $metabolites[re.sub('"', '', str($cp))]=list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	899 #for $met in $metabolites_list:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	900 #set tmp_met=re.sub('\,', '--',str($met))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	901 #set tmp_met_bis=str(re.split('_m', str($tmp_met))[0])
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	902 #set tmp_met_ter=re.sub('--', '\,',str($tmp_met_bis))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	903 $metabolites[re.sub('"', '', str($cp))].append(re.sub('"', '\'', str(tmp_met_ter)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	904 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	905 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	906 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	907 <token name="@INIT_MULTIGROUP_COMPARISONS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	908 #set $comparisons = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	909 #for $tp in $timepoint:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	910 #set $ctrl_found=False
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	911 #set $ctrl=""
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	912
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	913 #for $co in $conditions:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	914 #set $sub_comparisons = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	915 #if str($co) in ["Control", "control","ctrl"]:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	916 #set $ctrl_found=True
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	917 #set $ctrl=str($co)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	918 $sub_comparisons.append(re.sub('"', '', str($co)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	919 $sub_comparisons.append(re.sub('"', '', str($tp)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	920 #else:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	921 $sub_comparisons.append(re.sub('"', '', str($co)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	922 $sub_comparisons.append(re.sub('"', '', str($tp)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	923
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	924 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	925 $comparisons.append($sub_comparisons)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	926 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	927 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	928 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	929 <token name="@INIT_CONDITIONS_TIMECOURSE@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	930 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	931 #set $conditions = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	932 #for $i, $s in enumerate($factor_list)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	933 #set $cpt = str($i+1)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	934 $conditions.append(re.sub('"', '', str($s.condition)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	935 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	936
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	937 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	938 <token name="@INIT_BIVAR_COMPARISONS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	939 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	940 #set $conditions = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	941 #for $i, $s in enumerate($plot_factor_list)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	942 #set $cpt = str($i+1)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	943 $conditions.append(re.sub('"', '', str($s.condition)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	944 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	945 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	946 <token name="@INIT_COMPARISONS_METABOLOGRAM@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	947 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	948 #set $conditions = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	949 #set $timepoints = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	950 #set $comparisons = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	951 #for $i, $s in enumerate($deg_list)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	952 #set $cpt = str($i+1)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	953 #set $comparisons_bis = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	954 #for $j, $t in enumerate($s.factor_list)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	955 #set $sub_comparisons = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	956 #if str($t.condition) not in $conditions:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	957 $conditions.append(re.sub('"', '', str($t.condition)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	958 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	959 $sub_comparisons.append(re.sub('"', '', str($t.condition)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	960 $sub_comparisons.append(re.sub('"', '', str($s.timepoint)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	961 $comparisons_bis.append($sub_comparisons)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	962 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	963 $timepoints.append(re.sub('"', '', str($s.timepoint)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	964 $comparisons.append($comparisons_bis)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	965 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	966
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	967
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	968
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	969 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	970 <token name="@INIT_COMPARISONS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	971 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	972 #set $conds = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	973 #for $co in $conditions:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	974 $conds.append(re.sub('"', '', str($co)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	975 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	976 #set $timepoints = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	977 #for $tp in $timepoint:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	978 $timepoints.append(re.sub('"', '', str($tp)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	979 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	980
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	981 #set $comparisons = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	982 #if len($conds) > 1:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	983 #if len($timepoints) > 0:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	984 #for $tp in $timepoint:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	985 #set $ctrl_found=False
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	986 #set $ctrl=""
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	987 #set $comparisons_bis = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	988 #for $co in $conditions:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	989 #set $sub_comparisons = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	990 #if str($co) in ["'Control'", "'control'", "'ctrl'"]:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	991 #set $ctrl_found=True
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	992 #set $ctrl=str($co)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	993 #else:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	994 $sub_comparisons.append(re.sub('"', '', str($co)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	995 $sub_comparisons.append(re.sub('"', '', str($tp)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	996
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	997 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	998 $comparisons_bis.append($sub_comparisons)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	999 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1000
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1001 #if $ctrl_found:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1002 $sub_comparisons.append(str($ctrl))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1003 $sub_comparisons.append(str($tp))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1004 $comparisons_bis.append($sub_comparisons)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1005 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1006
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1007 $comparisons.append($comparisons_bis)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1008 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1009 #else
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1010 #for $co in $conditions:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1011 $comparisons.append(re.sub('"', '', str($co)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1012 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1013 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1014
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1015 #else
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1016 #if len($conds) > 0:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1017 #if len($timepoints) > 1:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1018 #for $co in $conditions:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1019 #set $comparisons_bis = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1020 #for $tp in $timepoint:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1021 #set $sub_comparisons = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1022 $sub_comparisons.append(re.sub('"', '', str($co)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1023 $sub_comparisons.append(re.sub('"', '', str($tp)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1024 $comparisons_bis.append($sub_comparisons)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1025 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1026 $comparisons.append($comparisons_bis)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1027 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1028 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1029 #else
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1030 #for $tp in $timepoint:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1031 $comparisons.append(re.sub('"', '', str($tp)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1032 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1033 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1034 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1035 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1036 <token name="@INIT_DIFF_ANALYSIS_COMPARISONS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1037 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1038 #set $conditions = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1039 #for $i, $s in enumerate($factor_list)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1040 #set $cpt = str($i+1)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1041 $conditions.append(re.sub('"', '', str($s.condition)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1042 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1043
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1044 #set $timepoints = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1045 #for $tp in $timepoint:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1046 $timepoints.append(re.sub('"', '', str($tp)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1047 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1048
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1049 #set $comparisons = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1050 #if len($conditions) > 1:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1051 #if len($timepoints) > 0:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1052 #for $tp in $timepoint:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1053 #set $ctrl_found=False
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1054 #set $ctrl=""
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1055 #set $comparisons_bis = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1056
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1057 #for $co in $conditions:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1058 #set $sub_comparisons = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1059 #if str($co) in ["'Control'", "'control'", "'ctrl'"]:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1060 #set $ctrl_found=True
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1061 #set $ctrl=str($co)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1062 #else:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1063 $sub_comparisons.append(re.sub('"', '', str($co)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1064 $sub_comparisons.append(re.sub('"', '', str($tp)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1065
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1066 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1067 $comparisons_bis.append($sub_comparisons)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1068 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1069
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1070 #if $ctrl_found:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1071 $sub_comparisons.append(str($ctrl))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1072 $sub_comparisons.append(str($tp))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1073 $comparisons_bis.append($sub_comparisons)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1074 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1075
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1076 $comparisons.append($comparisons_bis)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1077 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1078 #else
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1079 #for $co in $conditions:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1080 $comparisons.append(re.sub('"', '', str($co)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1081 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1082 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1083
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1084 #else
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1085 #if len($conditions) > 0:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1086 #if len($timepoints) > 1:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1087 #for $co in $conditions:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1088 #set $comparisons_bis = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1089 #for $tp in $timepoint:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1090 #set $sub_comparisons = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1091 $sub_comparisons.append(re.sub('"', '', str($co)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1092 $sub_comparisons.append(re.sub('"', '', str($tp)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1093 $comparisons_bis.append($sub_comparisons)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1094 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1095 $comparisons.append($comparisons_bis)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1096 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1097 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1098 #else
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1099 #for $tp in $timepoint:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1100 $comparisons.append(re.sub('"', '', str($tp)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1101 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1102 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1103 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1104 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1105 <token name="@INIT_TRANSCRIPTS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1106 #import re
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1107 #import os
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1108 #import subprocess
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1109 #set $transcripts = list()
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1110
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1111 #for $i, $s in enumerate($deg_list)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1112 #set $cpt = str($i+1)
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1113 $transcripts.append(re.sub('"', '', "DEG_comparison"+str($i+1)))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1114 #set $deg_one_values = os.fsdecode(subprocess.check_output('head -n1 ' + str($s.input) + '\| cut -f' + str($s.valuecol), shell=True))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1115 #set $deg_one_id = os.fsdecode(subprocess.check_output('head -n1 ' + str($s.input) + '\| cut -f' + str($s.idcol), shell=True))
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1116 #end for
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1117 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1118 <token name="@INIT_PATHWAYS@"><![CDATA[
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1119 #set $pathways = {}
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1120 #if $path_kegg_metabolites:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1121 #silent $pathways['metabolites']='pathways_kegg_metabolites'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1122 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1123 #if $path_kegg_transcripts:
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1124 #silent $pathways['transcripts']='pathways_kegg_transcripts'
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1125 #end if
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1126 ]]></token>
89e637c99bed planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit 30fe10acdf65c6917856a0eae21dc91abd2f609f iuc parents: diff changeset	1127 </macros>

Mercurial > repos > iuc > dimet_bivariate_analysis

annotate macros.xml @ 4:f070b08ff139 draft