Mercurial > repos > rnateam > graphclust_postprocessing

comparison glob_report.xml @ 5:fc701681ca6e draft

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planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b'7e5cd452018ae9507c2d1cd13dd688a747550393\n'
author rnateam
date Fri, 17 Mar 2017 08:23:26 -0400
parents dbcea781900e
children 8d02b983f97a
comparison
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4:dbcea781900e 5:fc701681ca6e
1 <tool id="glob_report" name="cluster_collection_report" version="0.1"> 1 <tool id="glob_report" name="cluster_collection_report" version="0.1">
2 <requirements> 2 <requirements>
3 <requirement type="package" version="0.1.10">graphclust-wrappers</requirement> 3 <requirement type="package" version="0.1.11">graphclust-wrappers</requirement>
4 <requirement type="package" version='0.5'>perl-array-utils</requirement> 4 <requirement type="package" version='0.5'>perl-array-utils</requirement>
5 <requirement type="package" version='0.18.1'>scikit-learn</requirement> 5 <requirement type="package" version='0.18.1'>scikit-learn</requirement>
6 <requirement type="package" version='1.8.10'>locarna</requirement> 6 <requirement type="package" version='1.8.10'>locarna</requirement>
7 <requirement type="package" version='2.1'>rnaz</requirement> 7 <requirement type="package" version='2.1'>rnaz</requirement>
8 <requirement type="package" version="1.1">infernal</requirement> 8 <requirement type="package" version="1.1">infernal</requirement>
45 $results_top_num 45 $results_top_num
46 #if $iteration_num.iteration_num_selector: 46 #if $iteration_num.iteration_num_selector:
47 $iteration_num.CI 47 $iteration_num.CI
48 $final_partition_soft 48 $final_partition_soft
49 $final_partition_used_cmsearch 49 $final_partition_used_cmsearch
50 '$combined_cm'
51
50 #end if 52 #end if
51 53
52 #if str($advanced_opts.advanced_opts_selector) == "show": 54 #if str($advanced_opts.advanced_opts_selector) == "show":
53 #if str($advanced_opts.param_type.param_type_selector) == "gclust": 55 #if str($advanced_opts.param_type.param_type_selector) == "gclust":
54 $advanced_opts.param_type.p 56 $advanced_opts.param_type.p
81 <param name="iteration_num_selector" type="boolean" checked="no" label="Multiple iterations" help="for single iteration- NO, for multiple-YES"/> 83 <param name="iteration_num_selector" type="boolean" checked="no" label="Multiple iterations" help="for single iteration- NO, for multiple-YES"/>
82 <when value="true"> 84 <when value="true">
83 <param name="CI" type="integer" value="2" size="5" label="Number of current iteration "/> 85 <param name="CI" type="integer" value="2" size="5" label="Number of current iteration "/>
84 <param type="data" name="final_partition_soft" format="txt" /> 86 <param type="data" name="final_partition_soft" format="txt" />
85 <param type="data" name="final_partition_used_cmsearch" format="txt" /> 87 <param type="data" name="final_partition_used_cmsearch" format="txt" />
88 <param type="data" name="combined_cm" format="txt" />
86 </when> 89 </when>
87 <when value="false" ></when> 90 <when value="false" ></when>
88 </conditional> 91 </conditional>
89 <param name="merge_cluster_ol" type="float" value="0.66" size="5" label="merge_cluster_ol" help=""/> 92 <param name="merge_cluster_ol" type="float" value="0.66" size="5" label="merge_cluster_ol" help=""/>
90 <param name="merge_overlap" type="float" value="0.51" size="5" label="merge_overlap" help=""/> 93 <param name="merge_overlap" type="float" value="0.51" size="5" label="merge_overlap" help=""/>
141 <data name="final_stats" format="txt" from_work_dir="RESULTS/cluster.final.stats" label="cluster.final.stats" /> 144 <data name="final_stats" format="txt" from_work_dir="RESULTS/cluster.final.stats" label="cluster.final.stats" />
142 <data name="tableForEval" format="tabular" from_work_dir="RESULTS/fullTab.tabular" label="tableForEval" /> 145 <data name="tableForEval" format="tabular" from_work_dir="RESULTS/fullTab.tabular" label="tableForEval" />
143 <data name="final_soft" format="txt" from_work_dir="RESULTS/partitions/final_partition.soft" label="soft_part" /> 146 <data name="final_soft" format="txt" from_work_dir="RESULTS/partitions/final_partition.soft" label="soft_part" />
144 <data name="final_used_cmsearch" format="txt" from_work_dir="RESULTS/partitions/final_partition.used_cmsearch" label="final_partition_used_cmsearch" /> 147 <data name="final_used_cmsearch" format="txt" from_work_dir="RESULTS/partitions/final_partition.used_cmsearch" label="final_partition_used_cmsearch" />
145 <data name="evaluation" format="txt" from_work_dir="RESULTS/evaluation.txt" label="evaluation_of_clusters" /> 148 <data name="evaluation" format="txt" from_work_dir="RESULTS/evaluation.txt" label="evaluation_of_clusters" />
149 <data name="combined_cm_out" format="txt" from_work_dir="combined_cmsearch_output" label="combined_cmsearch_output" />
146 <collection name="clusters" type="list" label="CLUSTERS"> 150 <collection name="clusters" type="list" label="CLUSTERS">
147 <discover_datasets pattern="(?P&lt;name&gt;^.*\.all$)" directory="RESULTS" /> 151 <discover_datasets pattern="(?P&lt;name&gt;^.*\.all$)" directory="RESULTS" />
148 </collection> 152 </collection>
149 <collection name="partitions" type="list" label="Partitions"> 153 <collection name="partitions" type="list" label="Partitions">
150 <discover_datasets pattern="(?P&lt;name&gt;^.*$)" directory="RESULTS/partitions" /> 154 <discover_datasets pattern="(?P&lt;name&gt;^.*$)" directory="RESULTS/partitions" />