Mercurial > repos > rnateam > graphclust_nspdk
comparison NSPDK_candidateClusters.xml @ 5:9b5fb987a484 draft
planemo upload for repository https://github.com/eteriSokhoyan/galaxytools/tree/branchForIterations/tools/GraphClust/NSPDK commit b'7e5cd452018ae9507c2d1cd13dd688a747550393\n'
| author | rnateam |
|---|---|
| date | Fri, 17 Mar 2017 08:28:51 -0400 |
| parents | 0625db6b6e45 |
| children | 2aaf391798a3 |
comparison
equal
deleted
inserted
replaced
| 4:0625db6b6e45 | 5:9b5fb987a484 |
|---|---|
| 1 <tool id="NSPDK_candidateClust" name="NSPDK_candidateClusters" version="9.2"> | 1 <tool id="NSPDK_candidateClust" name="NSPDK_candidateClusters" version="9.2"> |
| 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="9.2">nspdk</requirement> | 5 <requirement type="package" version="9.2">nspdk</requirement> |
| 6 </requirements> | 6 </requirements> |
| 7 <stdio> | 7 <stdio> |
| 8 <exit_code range="1:" /> | 8 <exit_code range="1:" /> |
| 9 </stdio> | 9 </stdio> |
| 10 <command> | 10 <command> |
| 11 <![CDATA[ | 11 <![CDATA[ |
| 12 | 12 |
| 13 mkdir ./SVECTOR && | 13 mkdir ./SVECTOR && |
| 14 | 14 |
| 15 #for $ins in $data_svector: | 15 #for $ins in $data_svector: |
| 16 ln -f -s '$ins' ./SVECTOR/ && | 16 ln -f -s '$ins' ./SVECTOR/$ins.element_identifier && |
| 17 #end for | 17 #end for |
| 18 | 18 |
| 19 NSPDK_candidateClusters.pl | 19 NSPDK_candidateClusters.pl |
| 20 '$data_fasta' | 20 '$data_fasta' |
| 21 '$data_names' | 21 '$data_names' |
| 60 <param name="max_rad" type="integer" value="3" size="5" label="maximum radius " help="-R"/> | 60 <param name="max_rad" type="integer" value="3" size="5" label="maximum radius " help="-R"/> |
| 61 <param name="max_dist_relations" type="integer" value="3" size="5" label="maximum distance relations" help="-D"/> | 61 <param name="max_dist_relations" type="integer" value="3" size="5" label="maximum distance relations" help="-D"/> |
| 62 <param name="noCache" truevalue="-no-cache" falsevalue="" checked="True" type="boolean" | 62 <param name="noCache" truevalue="-no-cache" falsevalue="" checked="True" type="boolean" |
| 63 label="Deactivate caching of kernel value computation (-no-cache)" help="to minimize memory usage"/> | 63 label="Deactivate caching of kernel value computation (-no-cache)" help="to minimize memory usage"/> |
| 64 <param name="ensf" type="integer" value="5" size="5" label="eccess neighbour size factor" help="-ensf"/> | 64 <param name="ensf" type="integer" value="5" size="5" label="eccess neighbour size factor" help="-ensf"/> |
| 65 <param name="usn" truevalue="-usn" falsevalue="" checked="True" type="boolean" | 65 <param name="usn" truevalue="-usn" falsevalue="" checked="True" type="boolean" |
| 66 label="Use shared neighbourhood to weight center density (-usn)" help="by default true"/> | 66 label="Use shared neighbourhood to weight center density (-usn)" help="by default true"/> |
| 67 <param name="oc" truevalue="-oc" falsevalue="" checked="True" type="boolean" | 67 <param name="oc" truevalue="-oc" falsevalue="" checked="True" type="boolean" |
| 68 label=" flag to output clusters (-oc)" help="by default true"/> | 68 label=" flag to output clusters (-oc)" help="by default true"/> |
| 69 <param name="knn" type="integer" value="20" size="5" label="Number of nearest neighbors" help="-knn num"/> | 69 <param name="knn" type="integer" value="20" size="5" label="Number of nearest neighbors" help="-knn num"/> |
| 70 <param name="nhf" type="integer" value="500" size="5" label="Number of hash functions " help="-nhf num"/> | 70 <param name="nhf" type="integer" value="500" size="5" label="Number of hash functions " help="-nhf num"/> |
| 94 </outputs> | 94 </outputs> |
| 95 <tests> | 95 <tests> |
| 96 <test> | 96 <test> |
| 97 <param name="data_fasta" value="data.fasta"/> | 97 <param name="data_fasta" value="data.fasta"/> |
| 98 <param name="data_names" value="data.names"/> | 98 <param name="data_names" value="data.names"/> |
| 99 <param name="data_svector" value="data.svector.1" ftype="zip" /> | 99 <param name="data_svector" value="1.group.gspan" /> |
| 100 <conditional name="iteration_num"> | 100 <conditional name="iteration_num"> |
| 101 <param name="iteration_num_selector" value="false"/> | 101 <param name="iteration_num_selector" value="false"/> |
| 102 </conditional> | 102 </conditional> |
| 103 <param name="noCache" value="-no-cache"/> | 103 <param name="noCache" value="-no-cache"/> |
| 104 <param name="ensf" value="5"/> | 104 <param name="ensf" value="5"/> |