Miscellaneous |
Version lineage of this tool (guids ordered most recent to oldest) |
toolshed.g2.bx.psu.edu/repos/earlhaminst/apoc/apoc/1.0+galaxy1 (this tool) |
toolshed.g2.bx.psu.edu/repos/earlhaminst/apoc/apoc/1.0 |
apoc |
Requirements (dependencies defined in the <requirements> tag set) |
name | version | type |
apoc | 1b16 | package |
coreutils | 8.31 | package |
Additional information about this tool |
#if $templates_source.template_source_select == 'list' #for $i, $s in enumerate( $templates_source.template ) echo '${s.input.file_name}' >> templates_path && #end for# paste -d "\t" templates_path '$templates_source.lt' | awk '{print $1"\t"$3}' > templates_list && #end if# #if $query_source.query_source_select == 'list' #for $i, $s in enumerate( $query_source.query ) echo '${s.input.file_name}' >> queries_path && #end for# paste -d "\t" queries_path '$query_source.lq' | awk '{print $1"\t"$3}' > queries_list && #end if# apoc -fa $fa -pvol $pvol -plen $plen $alignment_option.sod -v $alignment_option.v -m $scoring_option.m #if str($scoring_option.L) -L $scoring_option.L #end if $scoring_option.a $scoring_option.b $scoring_option.c #if $templates_source.template_source_select == 'list' -lt templates_list #else #if $templates_source.pt -pt '$templates_source.pt' #end if '$templates_source.pdbfile1' #end if #if $query_source.query_source_select == 'list' -lq queries_list #else #if $query_source.pq -pq '$query_source.pq' #end if '$query_source.pdbfile2' #end if > $output_apoc
Functional tests |
name | inputs | outputs | required files |
Test-1 |
templates_source|pdbfile1: apoc/1ha3A.pdb templates_source|template_source_select: pdbfile query_source|pdbfile2: apoc/3ec1A.pdb query_source|query_source_select: pdbfile |
name: value |
apoc/1ha3A.pdb apoc/3ec1A.pdb value |
Test-2 |
templates_source|lt: apoc/templ.lst templates_source|template_0|input: apoc/1ha3A.pdb templates_source|template_1|input: apoc/3ec1A.pdb templates_source|template_2|input: apoc/1yr8A.pdb templates_source|template_source_select: list query_source|pdbfile2: apoc/1yr8A.pdb query_source|query_source_select: pdbfile |
name: value |
apoc/templ.lst apoc/1ha3A.pdb apoc/3ec1A.pdb apoc/1yr8A.pdb value |
Test-3 |
templates_source|lt: apoc/templ.lst templates_source|template_0|input: apoc/1ha3A.pdb templates_source|template_1|input: apoc/3ec1A.pdb templates_source|template_2|input: apoc/1yr8A.pdb templates_source|template_source_select: list query_source|pdbfile2: apoc/1ha3A.pdb query_source|pq: 1ha3_GDP_A_406 query_source|query_source_select: pdbfile |
name: value |
apoc/templ.lst apoc/1ha3A.pdb apoc/3ec1A.pdb apoc/1yr8A.pdb value |
Test-4 |
templates_source|lt: apoc/templ.lst templates_source|template_0|input: apoc/1ha3A.pdb templates_source|template_1|input: apoc/3ec1A.pdb templates_source|template_2|input: apoc/1yr8A.pdb templates_source|template_source_select: list query_source|lq: apoc/query.lst query_source|query_0|input: apoc/3ec1A.pdb query_source|query_source_select: list |
name: value |
apoc/templ.lst apoc/1ha3A.pdb apoc/3ec1A.pdb apoc/1yr8A.pdb apoc/query.lst value |