Repository revision
34:5fd8dc04d6af

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

HyPhy-MEME tool metadata
Miscellaneous
HyPhy-MEME
Mixed Effects Model of Evolution
hyphy_meme
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/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_meme/hyphy_meme/2.5.47+galaxy0 (this tool)
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.36+galaxy2
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.31+galaxy2
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.31+galaxy1
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.30+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.29+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.26+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.25+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.24+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.23+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.21+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.17+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.15+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.14+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.12+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.11+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.9+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.8+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.7+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.5+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.4+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.3+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.2+galaxy1
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.2+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/hyphy_meme/hyphy_meme/2.5.0+galaxy0
hyphy_meme
Requirements (dependencies defined in the <requirements> tag set)
name version type
hyphy 2.5.47 package
Additional information about this tool
#if $input_nhx is not None:
            ln -s '$input_nhx' input.nhx &&
        #end if
        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 meme
            --alignment ./$input_file
            
            #if $input_nhx:
                --tree input.nhx
            #end if
        
    
            --code '$gencodeid'
            
        #if $branch_cond.branch_sel == 'specify':
            --branches '$branch_cond.branch_label'
        #else:
            --branches $branch_cond.branch_sel
        #end if
        
    
            --pvalue '$p_value'
            --resample $resample
            --output '$meme_output'
            --full-model '$full_model'
        
        ; EC=\$? ; [[ -f errors.* ]] && cat errors.* >&2 ; exit \$EC
None
False
Functional tests
name inputs outputs required files
Test-1 input_file: meme-in1.fa
input_nhx: meme-in1.nhx
branch_cond|branch_sel: All
p_value: 0.1
 name: value
 meme-in1.fa
meme-in1.nhx
value