Repository revision
34:5b777002c2de

Repository 'hyphy_gard'
hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard

HyPhy-GARD tool metadata
Miscellaneous
HyPhy-GARD
Genetic Algorithm for Recombination Detection
hyphy_gard
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.47+galaxy0
2.5.47+galaxy0
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.47+galaxy0 (this tool)
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.36+galaxy1
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.31+galaxy1
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.31+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.30+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.29+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.26+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.25+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.24+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.23+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.21+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.17+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.15+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.14+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.12+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.11+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.9+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.8+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.7+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.5+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.4+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.3+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.2+galaxy1
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.2+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_gard/hyphy_gard/2.5.0+galaxy0
hyphy_gard
Requirements (dependencies defined in the <requirements> tag set)
name version type
hyphy 2.5.47 package
Additional information about this tool
ln -s '$input_file' input.$input_file.extension &&
        #set $input_file = 'input.%s' % $input_file.extension
        \${GALAXY_MPIRUN:-mpirun -mca orte_tmpdir_base "\${TMPDIR:-.}" -np \${GALAXY_SLOTS:-1}} HYPHYMPI gard
            --alignment ./$input_file
            --type '$datatype.value'
            #if str($datatype.value) == 'codon':
                --code '$datatype.gencodeid'
            #elif str($datatype.value) == 'amino-acid':
                --model '$datatype.model'
            #end if
            #if str($rate_cond.rate):
                --rv '$rate_cond.rate'
                --rate-classes '$rate_cond.rate_classes'
            #end if
            --output '$translated'
            --output-lf '$gard_output'
        
        ; EC=\$? ; [[ -f errors.* ]] && cat errors.* >&2 ; exit \$EC
None
False
Functional tests
name inputs outputs required files
Test-1 input_file: gard-in1.fa
 name: value
name: value
 gard-in1.fa
value