Repository revision
5:dba114391c98

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

codeML tool metadata
Miscellaneous
codeML
Detects positive selection (paml package)
codeml
toolshed.g2.bx.psu.edu/repos/iuc/codeml/codeml/4.9+galaxy2
4.9+galaxy2
codeml /dev/null 2>&1 | tail -1
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/iuc/codeml/codeml/4.9+galaxy2 (this tool)
toolshed.g2.bx.psu.edu/repos/iuc/codeml/codeml/4.9+galaxy1
toolshed.g2.bx.psu.edu/repos/iuc/codeml/codeml/1.0
codeml
Requirements (dependencies defined in the <requirements> tag set)
name version type
paml 4.9 package
Additional information about this tool
cp '$codeml_ctl' '$ctl' &&
codeml '$codeml_ctl'
    
None
False
Functional tests
name inputs outputs required files
Test-1 concat_nuc: concat.fasta
tree: RAxML_bestTree
compat_model|NSsites: 0
compat_model|brmodel: 0
adv|fix_omega: 0
adv|omega: 0.2
adv|RateAncestor: 1
name: value
name: value
name: value
name: value
name: value
concat.fasta
RAxML_bestTree
value
Test-2 concat_nuc: concat.fasta
tree: tree_model2
compat_model|NSsites: 0
compat_model|brmodel: 2
adv|fix_omega: 0
adv|omega: 0.2
adv|RateAncestor: 1
name: value
name: value
name: value
name: value
name: value
concat.fasta
tree_model2
value
Test-3 concat_nuc: concat.fasta
tree: tree_model3
compat_model|NSsites: 2
compat_model|brmodel: 3
adv|fix_omega: 0
adv|omega: 0.2
adv|RateAncestor: 1
name: value
name: value
name: value
name: value
name: value
concat.fasta
tree_model3
value