| Previous changeset 3:79b9117aef01 (2017-01-04) Next changeset 5:4310ac018d05 (2017-01-21) |
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Commit message:
planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/CollectResults commit 287021573c592fdb70fdbbc88943aa16a8740fc0 |
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modified:
glob_report.xml |
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added:
test-data/1.cluster.top5.alirna.png test-data/1.cluster.top5.aln.png test-data/2.cluster.top5.alirna.png test-data/2.cluster.top5.aln.png |
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| diff -r 79b9117aef01 -r 4a9754d476fe glob_report.xml --- a/glob_report.xml Wed Jan 04 18:15:07 2017 -0500 +++ b/glob_report.xml Fri Jan 13 16:59:29 2017 -0500 |
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| @@ -3,6 +3,11 @@ <requirement type="package" version="0.1">graphclust-wrappers</requirement> <requirement type="package" version='0.5'>perl-array-utils</requirement> <requirement type="package" version='0.18.1'>scikit-learn</requirement> + <requirement type="package" version='1.8.10'>locarna</requirement> + <requirement type="package" version='2.1'>rnaz</requirement> + <requirement type="package" version="1.1">infernal</requirement> + <requirement type="package" version='2.2.10'>viennarna</requirement> + <requirement type="package" version='1.3.23'>graphicsmagick</requirement> </requirements> <stdio> <exit_code range="1:" /> @@ -24,7 +29,7 @@ #set $inputFilesTrees += str($mods)+',' #end for #set $inputFilesTrees = $inputFilesTrees[:-1] - glob_res.pl + glob_res.pl '$inputFiles' $merge_cluster_ol $merge_overlap @@ -35,6 +40,7 @@ $partition_type '' $cut_type '$inputFilesTrees' + $results_top_num #if $iteration_num.iteration_num_selector: $iteration_num.CI $final_partition_soft @@ -46,7 +52,7 @@ #if $cdhit: && python '$__tool_directory__/addCdhitseqs.py' '$cdhit' - #end if + #end if ]]> </command> <inputs> @@ -71,19 +77,26 @@ <param name="cm_min_bitscore" type="integer" value="20" size="5" label="cm_min_bitscore" help=""/> <param name="cm_max_eval" type="float" value="0.001" size="5" label="cm_max_eval" help=""/> <param name="cm_bitscore_sig" type="integer" value="1" size="5" label="cm_bitscore_sig" help=""/> + <param name="results_top_num" type="integer" value="5" size="5" label="results_top_num" help=""/> </inputs> <outputs> <data name="final_stats" format="txt" from_work_dir="RESULTS/cluster.final.stats" label="cluster.final.stats" /> <data name="tableForEval" format="tabular" from_work_dir="RESULTS/fullTab.tabular" label="tableForEval" /> <data name="final_soft" format="txt" from_work_dir="RESULTS/partitions/final_partition.soft" label="soft_part" /> <data name="final_used_cmsearch" format="txt" from_work_dir="RESULTS/partitions/final_partition.used_cmsearch" label="final_partition_used_cmsearch" /> - <data name="evaluation" format="txt" from_work_dir="RESULTS/evaluation.txt" label="evaluation_of_clusters" /> + <data name="evaluation" format="txt" from_work_dir="RESULTS/evaluation.txt" label="evaluation_of_clusters" /> <collection name="clusters" type="list" label="CLUSTERS"> <discover_datasets pattern="(?P<name>^.*\.all$)" directory="RESULTS" /> </collection> <collection name="partitions" type="list" label="Partitions"> <discover_datasets pattern="(?P<name>^.*$)" directory="RESULTS/partitions" /> </collection> + <collection name="topSecondaryStruct" type="list" label="Top $results_top_num alirna.ps"> + <discover_datasets format="png" pattern="(?P<name>^.*\.alirna.png$)" /> + </collection> + <collection name="topDot" type="list" label="Top $results_top_num aln.ps"> + <discover_datasets format="png" pattern="(?P<name>^.*\.aln.png$)" /> + </collection> </outputs> <tests> <test> @@ -125,6 +138,15 @@ <element name="final_partition.soft" file="RESULTS/partitions/final_partition.soft" /> <element name="final_partition.used_cmsearch" file="RESULTS/partitions/final_partition.used_cmsearch" compare="contains"/> </output_collection> + <param name="results_top_num" value="5"/> + <output_collection name="topSecondaryStruct" type="list"> + <element name="1.cluster.top5.alirna.png" file="1.cluster.top5.alirna.png" ftype="png" compare="sim_size" /> + <element name="2.cluster.top5.alirna.png" file="2.cluster.top5.alirna.png" ftype="png" compare="sim_size" /> + </output_collection> + <output_collection name="topDot" type="list"> + <element name="1.cluster.top5.aln.png" file="1.cluster.top5.aln.png" ftype="png" compare="sim_size"/> + <element name="2.cluster.top5.aln.png" file="2.cluster.top5.aln.png" ftype="png" compare="sim_size"/> + </output_collection> </test> </tests> <help> |
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