Mercurial > repos > shellac > guppy_basecaller
view env/lib/python3.7/site-packages/planemo/commands/cmd_brew.py @ 4:79f47841a781 draft
"planemo upload commit 2a0fe2cc28b09e101d37293e53e82f61762262ec"
author | shellac |
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date | Thu, 14 May 2020 16:47:39 -0400 |
parents | 26e78fe6e8c4 |
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"""Module describing the planemo ``brew`` command.""" import click from galaxy.tool_util.deps import ( brew_exts, brew_util, ) from galaxy.tool_util.deps.requirements import parse_requirements_from_xml from galaxy.tool_util.loader_directory import load_tool_elements_from_path from galaxy.util import bunch from planemo import options from planemo.cli import command_function @click.command('brew') @options.optional_tools_arg() @options.brew_option() @command_function def cli(ctx, path, brew=None): """Install tool requirements using brew. An experimental approach to versioning brew recipes will be used. See full discussion on the homebrew-science issues page here - https://github.com/Homebrew/homebrew-science/issues/1191. Information on the implementation can be found at https://github.com/jmchilton/platform-brew until a more permanent project home is setup. """ for (tool_path, tool_xml) in load_tool_elements_from_path(path): ctx.log('Brewing requirements from tool %s', click.format_filename(tool_path)) mock_args = bunch.Bunch(brew=brew) brew_context = brew_exts.BrewContext(mock_args) requirements, containers = parse_requirements_from_xml(tool_xml) for recipe_context in brew_util.requirements_to_recipe_contexts( requirements, brew_context ): brew_exts.versioned_install(recipe_context)