Module Expr Str Import alias ImportFrom alias ImportFrom alias ImportFrom alias alias FunctionDef arguments args NameParam defaults body Expr Str Assign NameStore Str Assign NameStore Call AttributeLoad AttributeLoad NameLoad attr attr AttributeLoad NameLoad attr Str Assign NameStore Call AttributeLoad AttributeLoad NameLoad attr attr AttributeLoad NameLoad attr Str Str If Call AttributeLoad NameLoad attr NameLoad body Return If UnaryOpNot Call AttributeLoad NameLoad attr NameLoad body With Call NameLoad NameStore body With Call NameLoad NameLoad body Expr Call AttributeLoad NameLoad attr Call AttributeLoad Str attr NameLoad Expr Call AttributeLoad NameLoad attr Call AttributeLoad Str attr NameLoad Expr Call AttributeLoad NameLoad attr Call AttributeLoad Str attr NameLoad Expr Call AttributeLoad NameLoad attr BinOpMod Str NameLoad Expr Call AttributeLoad NameLoad attr BinOpMod Str NameLoad Expr Call AttributeLoad NameLoad attr BinOpMod Str TupleLoad NameLoad NameLoad Expr Call AttributeLoad NameLoad attr BinOpMod Str TupleLoad NameLoad NameLoad decorator_list FunctionDef arguments args NameParam defaults body Expr Str Assign NameStore Str Assign NameStore Call AttributeLoad AttributeLoad NameLoad attr attr AttributeLoad NameLoad attr Str Assign NameStore Call AttributeLoad AttributeLoad NameLoad attr attr AttributeLoad NameLoad attr Str Str If UnaryOpNot Call AttributeLoad NameLoad attr NameLoad body With Call NameLoad NameStore body With Call NameLoad NameLoad body Expr Call AttributeLoad NameLoad attr BinOpMod Str NameLoad Expr Call AttributeLoad NameLoad attr BinOpMod Str NameLoad Expr Call AttributeLoad NameLoad attr BinOpMod Str NameLoad Expr Call AttributeLoad NameLoad attr BinOpMod Str NameLoad Expr Call AttributeLoad NameLoad attr BinOpMod Str TupleLoad NameLoad NameLoad For NameStore ListLoad Str Str Str Str Str Str body Expr Call AttributeLoad NameLoad attr BinOpMod Str TupleLoad NameLoad NameLoad AttributeLoad NameLoad attr NameLoad decorator_list Call NameLoad Str
N/A N/A Install instructions for non-packaged phyologeny programs.
 N/A os fabric.api * fabric.contrib.files * cloudbio.custom.shared _if_not_installed _make_tmp_dir install_tracer N/A N/A env N/A N/A N/A A program for analysing results from Bayesian MCMC programs such as BEAST & MrBayes.
    http://tree.bio.ed.ac.uk/software/tracer/
     N/A version 1.5 N/A install_dir N/A N/A N/A os path join N/A env system_install bioinf N/A final_exe N/A N/A N/A os path join N/A env system_install bin tracer N/A N/A N/A env safe_exists final_exe N/A N/A N/A N/A N/A N/A env safe_exists final_exe N/A N/A N/A _make_tmp_dir work_dir N/A N/A N/A cd work_dir N/A N/A N/A N/A env safe_run N/A N/A wget -O Tracer_v{0}.tgz 'http://tree.bio.ed.ac.uk/download.php?id=80&num=3' format version N/A N/A N/A env safe_run N/A N/A tar xvzf Tracer_v{0}.tgz format version N/A N/A N/A env safe_run N/A N/A chmod a+x Tracer_v{0}/bin/tracer format version N/A N/A N/A env safe_sudo N/A mkdir -p %s install_dir N/A N/A N/A env safe_sudo N/A rm -rvf %s/tracer install_dir N/A N/A N/A env safe_sudo N/A mv -f Tracer_v%s %s/tracer N/A version install_dir N/A N/A N/A env safe_sudo N/A ln -sf %s/tracer/bin/tracer %s N/A install_dir final_exe N/A install_beast N/A N/A env N/A N/A N/A BEAST: Bayesian MCMC analysis of molecular sequences.
    http://beast.bio.ed.ac.uk
     N/A version 1.7.4 N/A install_dir N/A N/A N/A os path join N/A env system_install bioinf N/A final_exe N/A N/A N/A os path join N/A env system_install bin beast N/A N/A N/A N/A env safe_exists final_exe N/A N/A N/A _make_tmp_dir work_dir N/A N/A N/A cd work_dir N/A N/A N/A N/A env safe_run N/A wget -c http://beast-mcmc.googlecode.com/files/BEASTv%s.tgz version N/A N/A N/A env safe_run N/A tar xvzf BEASTv%s.tgz version N/A N/A N/A env safe_sudo N/A mkdir -p %s install_dir N/A N/A N/A env safe_sudo N/A rm -rvf %s/beast install_dir N/A N/A N/A env safe_sudo N/A mv -f BEASTv%s %s/beast N/A version install_dir N/A l N/A beast beauti loganalyser logcombiner treeannotator treestat N/A N/A N/A N/A env safe_sudo N/A ln -sf %s/beast/bin/%s %s/bin/%s N/A install_dir l N/A env system_install l N/A N/A _if_not_installed beast -help