graphclust_postprocessing: glob

annotate glob_report.xml @ 9:2222a4e8ab4f draft

planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit f971832d2b34a182314e5201ea6895dd207c5923

author	rnateam
date	Mon, 13 Mar 2017 18:02:02 -0400
parents	9a69a6098b71
children	044bb294db78

rev	line source
8 9a69a6098b71 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 5a545fc913b3a07e1452e67f66b2ca593660abdf rnateam parents: 7 diff changeset	1 <tool id="glob_report" name="cluster_collection_report" version="0.1">
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	2 <requirements>
9 2222a4e8ab4f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit f971832d2b34a182314e5201ea6895dd207c5923 rnateam parents: 8 diff changeset	3 <requirement type="package" version="0.1.10">graphclust-wrappers</requirement>
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	4 <requirement type="package" version='0.5'>perl-array-utils</requirement>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	5 <requirement type="package" version='0.18.1'>scikit-learn</requirement>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	6 <requirement type="package" version='1.8.10'>locarna</requirement>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	7 <requirement type="package" version='2.1'>rnaz</requirement>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	8 <requirement type="package" version="1.1">infernal</requirement>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	9 <requirement type="package" version='2.2.10'>viennarna</requirement>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	10 <requirement type="package" version='1.3.23'>graphicsmagick</requirement>
7 870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	11 <requirement type="package" version='0.3.1'>rscape</requirement>
870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	12
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	13 </requirements>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	14 <stdio>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	15 <exit_code range="1:" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	16 </stdio>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	17 <command>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	18 <![CDATA[
0 b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	19 unzip $FASTA &> /dev/null &&
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	20
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	21 #set $inputFiles = ""
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	22
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	23 #for $cms_res in $cmsearch_results:
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	24 #set $inputFiles += str($cms_res)+','
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	25 #end for
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	26 #set $inputFiles = $inputFiles[:-1]
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	27
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	28 #set $inputFilesTrees = ""
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	29
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	30 #for $mods in $model_tree_files:
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	31 #set $inputFilesTrees += str($mods)+','
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	32 #end for
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	33 #set $inputFilesTrees = $inputFilesTrees[:-1]
7 870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	34 'glob_res.pl'
3 79b9117aef01 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit c03cf64554289eb098267c0923cf0cf7b245cc0c rnateam parents: 2 diff changeset	35 '$inputFiles'
79b9117aef01 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit c03cf64554289eb098267c0923cf0cf7b245cc0c rnateam parents: 2 diff changeset	36 $merge_cluster_ol
79b9117aef01 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit c03cf64554289eb098267c0923cf0cf7b245cc0c rnateam parents: 2 diff changeset	37 $merge_overlap
79b9117aef01 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit c03cf64554289eb098267c0923cf0cf7b245cc0c rnateam parents: 2 diff changeset	38 $min_cluster_size
79b9117aef01 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit c03cf64554289eb098267c0923cf0cf7b245cc0c rnateam parents: 2 diff changeset	39 $cm_min_bitscore
79b9117aef01 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit c03cf64554289eb098267c0923cf0cf7b245cc0c rnateam parents: 2 diff changeset	40 $cm_max_eval
79b9117aef01 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit c03cf64554289eb098267c0923cf0cf7b245cc0c rnateam parents: 2 diff changeset	41 $cm_bitscore_sig
79b9117aef01 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit c03cf64554289eb098267c0923cf0cf7b245cc0c rnateam parents: 2 diff changeset	42 $partition_type ''
79b9117aef01 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit c03cf64554289eb098267c0923cf0cf7b245cc0c rnateam parents: 2 diff changeset	43 $cut_type
79b9117aef01 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit c03cf64554289eb098267c0923cf0cf7b245cc0c rnateam parents: 2 diff changeset	44 '$inputFilesTrees'
4 4a9754d476fe planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 287021573c592fdb70fdbbc88943aa16a8740fc0 rnateam parents: 3 diff changeset	45 $results_top_num
0 b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	46 #if $iteration_num.iteration_num_selector:
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	47 $iteration_num.CI
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	48 $final_partition_soft
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	49 $final_partition_used_cmsearch
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	50 #end if
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	51
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	52 #if str($advanced_opts.advanced_opts_selector) == "show":
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	53 #if str($advanced_opts.param_type.param_type_selector) == "gclust":
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	54 $advanced_opts.param_type.p
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	55 $advanced_opts.param_type.max_diff_am
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	56 $advanced_opts.param_type.max_diff
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	57 $advanced_opts.param_type.tau
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	58 $advanced_opts.param_type.struct_weight
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	59 $advanced_opts.param_type.indel_opening
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	60 $advanced_opts.param_type.indel
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	61 $advanced_opts.param_type.alifold_consensus_dp
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	62 #end if
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	63 #end if
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	64
0 b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	65 &&
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	66 python '$__tool_directory__/evaluation.py'
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	67 #if $cdhit:
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	68 &&
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	69 python '$__tool_directory__/addCdhitseqs.py' '$cdhit'
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	70 #end if
0 b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	71 ]]>
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	72 </command>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	73 <inputs>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	74 <param type="data" name="FASTA" format="zip" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	75 <param type="data" name="cmsearch_results" format="tabular" multiple="True"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	76 <param type="data" name="model_tree_files" format="txt" multiple="True"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	77 <param name="partition_type" type="boolean" checked="True" truevalue="0" falsevalue="1" label="Hard partition"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	78 <param name="cut_type" type="boolean" checked="True" truevalue="0" falsevalue="1" label="Use CM score for cutoff" help="otherwise use E-value"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	79 <param type="data" name="cdhit" format="txt" optional="true"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	80 <conditional name="iteration_num">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	81 <param name="iteration_num_selector" type="boolean" checked="no" label="Multiple iterations" help="for single iteration- NO, for multiple-YES"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	82 <when value="true">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	83 <param name="CI" type="integer" value="2" size="5" label="Number of current iteration "/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	84 <param type="data" name="final_partition_soft" format="txt" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	85 <param type="data" name="final_partition_used_cmsearch" format="txt" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	86 </when>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	87 <when value="false" ></when>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	88 </conditional>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	89 <param name="merge_cluster_ol" type="float" value="0.66" size="5" label="merge_cluster_ol" help=""/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	90 <param name="merge_overlap" type="float" value="0.51" size="5" label="merge_overlap" help=""/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	91 <param name="min_cluster_size" type="integer" value="3" size="5" label="min_cluster_size" help=""/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	92 <param name="cm_min_bitscore" type="integer" value="20" size="5" label="cm_min_bitscore" help=""/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	93 <param name="cm_max_eval" type="float" value="0.001" size="5" label="cm_max_eval" help=""/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	94 <param name="cm_bitscore_sig" type="integer" value="1" size="5" label="cm_bitscore_sig" help=""/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	95 <param name="results_top_num" type="integer" value="5" size="5" label="results_top_num" help=""/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	96
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	97 <conditional name="advanced_opts">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	98 <param name="advanced_opts_selector" type="select" label="Advanced Options">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	99 <option value="hide" selected="True">Hide</option>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	100 <option value="show">Show</option>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	101 </param>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	102 <when value="hide"></when>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	103 <when value="show">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	104
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	105 <conditional name="param_type">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	106 <param name="param_type_selector" type="select" label="Choose the type of parameters">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	107 <option value="locarna">LocARNA defaults</option>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	108 <option value="gclust" selected="True">GrapClust defaults(changeable)</option>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	109 </param>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	110 <when value="gclust">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	111
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	112 <param name="p" type="float" value="0.001" size="5" label="minimal probability" help="-p"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	113 <param name="max_diff_am" type="integer" value="50" size="5" label=" maximal difference for sizes of matched arcs" help="--max-diff-am"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	114 <param argument="tau" type="integer" value="50" min="0" max="200" label="Sequence contribution at structure match in percent"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	115 <param name="max_diff" type="integer" value="100" size="5" label="maximal difference for alignment traces" help="--max-diff"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	116
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	117 <param name="struct_weight" argument="struct-weight"
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	118 label="Structure weight" type="integer"
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	119 value="180" min="0" max="800" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	120 <param name="indel_opening" argument="indel-opening"
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	121 label="Indel opening score" type="integer"
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	122 value="-400" max="0" min="-1500" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	123 <param argument="indel" label="Indel score" type="integer"
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	124 value="-200" min="-1000" max="0" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	125
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	126 <param name="alifold_consensus_dp"
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	127 type="boolean" checked="True"
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	128 truevalue="--alifold-consensus-dp" falsevalue=" "
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	129 label="Compute consensus dot plot by alifold" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	130
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	131 </when>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	132 <when value="locarna">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	133 </when>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	134 </conditional>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	135
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	136 </when>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	137 </conditional>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	138
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	139 </inputs>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	140 <outputs>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	141 <data name="final_stats" format="txt" from_work_dir="RESULTS/cluster.final.stats" label="cluster.final.stats" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	142 <data name="tableForEval" format="tabular" from_work_dir="RESULTS/fullTab.tabular" label="tableForEval" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	143 <data name="final_soft" format="txt" from_work_dir="RESULTS/partitions/final_partition.soft" label="soft_part" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	144 <data name="final_used_cmsearch" format="txt" from_work_dir="RESULTS/partitions/final_partition.used_cmsearch" label="final_partition_used_cmsearch" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	145 <data name="evaluation" format="txt" from_work_dir="RESULTS/evaluation.txt" label="evaluation_of_clusters" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	146 <collection name="clusters" type="list" label="CLUSTERS">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	147 <discover_datasets pattern="(?P<name>^.*\.all$)" directory="RESULTS" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	148 </collection>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	149 <collection name="partitions" type="list" label="Partitions">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	150 <discover_datasets pattern="(?P<name>^.*$)" directory="RESULTS/partitions" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	151 </collection>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	152 <collection name="topSecondaryStruct" type="list" label="Top $results_top_num alirna.ps">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	153 <discover_datasets format="png" pattern="(?P<name>^.*\.alirna.png$)" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	154 </collection>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	155 <collection name="topDot" type="list" label="Top $results_top_num aln.ps">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	156 <discover_datasets format="png" pattern="(?P<name>^.*\.aln.png$)" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	157 </collection>
7 870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	158 <collection name="rscapePlot" type="list" label="R-scape Plot">
870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	159 <discover_datasets format="pdf" pattern="(?P<name>^.*\.pdf$)" />
870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	160 </collection>
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	161 <data name="RESULTS_zip" format="zip" from_work_dir="RESULTS.zip" label="RESULTS.zip" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	162 </outputs>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	163 <tests>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	164 <test>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	165 <param name="FASTA" value="FASTA.zip" ftype="searchgui_archive"/>
6 869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	166 <param name="cmsearch_results" value="1.tabular,2.tabular,3.tabular,4.tabular,5.tabular"/>
869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	167 <param name="model_tree_files" value="1.1.model.tree.fa,1.2.model.tree.fa,1.3.model.tree.fa,1.4.model.tree.fa,1.5.model.tree.fa"/>
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	168 <param name="partition_type" value="0"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	169 <param name="cut_type" value="0"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	170 <conditional name="iteration_num">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	171 <param name="iteration_num_selector" value="false"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	172 </conditional>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	173 <param name="merge_cluster_ol" value="0.66"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	174 <param name="merge_overlap" value="0.51"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	175 <param name="min_cluster_size" value="3"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	176 <param name="cm_min_bitscore" value="20"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	177 <param name="cm_max_eval" value="0.001"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	178 <param name="cm_bitscore_sig" value="1"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	179 <output name="final_stats" file="RESULTS/cluster.final.stats" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	180 <output_collection name="clusters" type="list">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	181 <element name="1.cluster.all" file="RESULTS/1.cluster.all" compare="contains"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	182 <element name="2.cluster.all" file="RESULTS/2.cluster.all" compare="contains"/>
6 869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	183 <element name="3.cluster.all" file="RESULTS/3.cluster.all" compare="contains"/>
869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	184 <element name="4.cluster.all" file="RESULTS/4.cluster.all" compare="contains"/>
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	185 </output_collection>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	186 <output_collection name="partitions">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	187 <element name="final_overlap.map" file="RESULTS/partitions/final_overlap.map" compare="contains">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	188 <assert_contents>
6 869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	189 <has_text text="1.1 1.1 1.2" />
869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	190 <has_text text="1.3 1.3" />
869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	191 <has_text text="1.4 1.4" />
869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	192 <has_text text="1.5 1.5 " />
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	193 </assert_contents>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	194 </element>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	195 <element name="final_overlap.matrix" file="RESULTS/partitions/final_overlap.matrix" compare="contains">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	196 <assert_contents>
6 869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	197 <has_text text="MODEL CLASS 0 0 0 0 0" />
869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	198 <!--has_text text="1.2" />
869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	199 <has_text text="1.1" /-->
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	200 </assert_contents>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	201 </element>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	202 <element name="final_partition.hard.best" file="RESULTS/partitions/final_partition.hard.best" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	203 <element name="final_partition.hard.merged" file="RESULTS/partitions/final_partition.hard.merged" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	204 <element name="final_partition.soft" file="RESULTS/partitions/final_partition.soft" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	205 <element name="final_partition.used_cmsearch" file="RESULTS/partitions/final_partition.used_cmsearch" compare="contains"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	206 </output_collection>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	207 <param name="results_top_num" value="5"/>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	208 <output_collection name="topSecondaryStruct" type="list">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	209 <element name="1.cluster.top5.alirna.png" file="1.cluster.top5.alirna.png" ftype="png" compare="sim_size" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	210 <element name="2.cluster.top5.alirna.png" file="2.cluster.top5.alirna.png" ftype="png" compare="sim_size" />
6 869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	211 <element name="3.cluster.top5.alirna.png" file="3.cluster.top5.alirna.png" ftype="png" compare="sim_size" />
869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	212 <element name="4.cluster.top5.alirna.png" file="4.cluster.top5.alirna.png" ftype="png" compare="sim_size" />
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	213 </output_collection>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	214 <output_collection name="topDot" type="list">
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	215 <element name="1.cluster.top5.aln.png" file="1.cluster.top5.aln.png" ftype="png" compare="sim_size" />
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	216 <element name="2.cluster.top5.aln.png" file="2.cluster.top5.aln.png" ftype="png" compare="sim_size" />
6 869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	217 <element name="3.cluster.top5.aln.png" file="3.cluster.top5.aln.png" ftype="png" compare="sim_size" />
869a6e807d76 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 057c2fd398055dc86eb2c00d8a74f301d5c231d9-dirty rnateam parents: 5 diff changeset	218 <element name="4.cluster.top5.aln.png" file="4.cluster.top5.aln.png" ftype="png" compare="sim_size" />
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	219 </output_collection>
7 870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	220
870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	221 <output_collection name="rscapePlot" type="list">
870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	222 <element name="1.cluster.top5.result.aln_1.R2R.sto.pdf" file="1.cluster.top5.result.aln_1.R2R.sto.pdf" ftype="pdf" compare="sim_size" />
870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	223 <element name="2.cluster.top5.result.aln_1.R2R.sto.pdf" file="2.cluster.top5.result.aln_1.R2R.sto.pdf" ftype="pdf" compare="sim_size" />
870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	224 <element name="3.cluster.top5.result.aln_1.R2R.sto.pdf" file="3.cluster.top5.result.aln_1.R2R.sto.pdf" ftype="pdf" compare="sim_size" />
870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	225 <element name="4.cluster.top5.result.aln_1.R2R.sto.pdf" file="4.cluster.top5.result.aln_1.R2R.sto.pdf" ftype="pdf" compare="sim_size" />
870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	226 </output_collection>
870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	227
870dfc90473f planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit b3fe72d71e27a7b66621ecaae3e2da4bc4ca6986 rnateam parents: 6 diff changeset	228 <output name="RESULTS_zip" file="RESULTS.zip" ftype="zip" compare="sim_size" delta="20000"/>
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	229
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	230 </test>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	231 </tests>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	232 <help>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	233 <![CDATA[
0 b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	234
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	235 What it does
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	236
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	237 Post-processing. Redundant clusters are merged and instances that belong to multiple clusters
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	238 are assigned unambiguously. For every pair of clusters, the relative overlap (i.e. the fraction of
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	239 instances that occur in both clusters) is computed and clusters are merged if the overlap exceeds 50%.
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	240 Cluster members are finally ranked by their CM bitscore.
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	241
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	242 ]]>
5 4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	243 </help>
4310ac018d05 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 80c721dcfe02a2b8baf8e2c64b76cbcd71b23d86 rnateam parents: 4 diff changeset	244 <citations>
0 b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	245 <citation type="bibtex">@inproceedings{costa2010fast,
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	246 title={Fast neighborhood subgraph pairwise distance kernel},
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	247 author={Costa, Fabrizio and De Grave, Kurt},
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	248 booktitle={Proceedings of the 26th International Conference on Machine Learning},
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	249 pages={255--262},
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	250 year={2010},
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	251 organization={Omnipress}
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	252 }
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	253 </citation>
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	254 </citations>
b797e13169a0 planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 21aaee40723b5341b4236edeb0e72995c2054053 rnateam parents: diff changeset	255 </tool>

Mercurial > repos > rnateam > graphclust_postprocessing

annotate glob_report.xml @ 9:2222a4e8ab4f draft