Mercurial > repos > shellac > sam_consensus_v3
annotate env/lib/python3.9/site-packages/galaxy/tool_util/deps/container_resolvers/__init__.py @ 0:4f3585e2f14b draft default tip
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author | shellac |
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date | Mon, 22 Mar 2021 18:12:50 +0000 |
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1 """The module defines the abstract interface for resolving container images for tool execution.""" |
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2 from abc import ( |
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3 ABCMeta, |
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4 abstractmethod, |
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5 abstractproperty, |
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6 ) |
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7 |
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8 |
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9 from galaxy.util.bunch import Bunch |
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10 from galaxy.util.dictifiable import Dictifiable |
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11 |
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12 |
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13 class ResolutionCache(Bunch): |
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14 """Simple cache for duplicated computation created once per set of requests (likely web request in Galaxy context). |
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15 |
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16 This should not be assumed to be thread safe - resolution using a given cache should all occur |
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17 one resolution at a time in a single thread. |
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18 """ |
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19 |
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20 |
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21 class ContainerResolver(Dictifiable, metaclass=ABCMeta): |
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22 """Description of a technique for resolving container images for tool execution.""" |
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23 |
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24 # Keys for dictification. |
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25 dict_collection_visible_keys = ['resolver_type', 'can_uninstall_dependencies', 'builds_on_resolution'] |
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26 can_uninstall_dependencies = False |
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27 builds_on_resolution = False |
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28 read_only = True # not used for containers, but set for when they are used like dependency resolvers |
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29 |
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30 def __init__(self, app_info=None, **kwds): |
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31 """Default initializer for ``ContainerResolver`` subclasses.""" |
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32 self.app_info = app_info |
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33 self.resolver_kwds = kwds |
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34 |
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35 def _get_config_option(self, key, default=None): |
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36 """Look in resolver-specific settings for option and then fallback to |
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37 global settings. |
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38 """ |
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39 if self.app_info and hasattr(self.app_info, key): |
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40 return getattr(self.app_info, key) |
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41 else: |
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42 return default |
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43 |
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44 @abstractmethod |
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45 def resolve(self, enabled_container_types, tool_info, resolution_cache=None, **kwds): |
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46 """Find a container matching all supplied requirements for tool. |
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47 |
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48 The supplied argument is a :class:`galaxy.tool_util.deps.containers.ToolInfo` description |
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49 of the tool and its requirements. |
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50 """ |
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51 |
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52 @abstractproperty |
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53 def resolver_type(self): |
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54 """Short label for the type of container resolution.""" |
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55 |
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56 def _container_type_enabled(self, container_description, enabled_container_types): |
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57 """Return a boolean indicating if the specified container type is enabled.""" |
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58 return container_description.type in enabled_container_types |
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59 |
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60 def __str__(self): |
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61 return "%s[]" % self.__class__.__name__ |