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Commit dbd5d298 authored by Arthur Le Bars's avatar Arthur Le Bars
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removed obsolete code

parent 696dea98
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2 merge requests!9Release 2.0 (merge dev to master),!5Workflow v2
...@@ -87,37 +87,6 @@ class LoadData(speciesData.SpeciesData): ...@@ -87,37 +87,6 @@ class LoadData(speciesData.SpeciesData):
get_organism_tool_version = get_organism_tool["version"] get_organism_tool_version = get_organism_tool["version"]
delete_organism_tool_version = delete_organism_tool["version"] delete_organism_tool_version = delete_organism_tool["version"]
# if delete_organism_tool["version"] != "2.3.4+galaxy0":
# toolshed_dict = delete_organism_tool["tool_shed_repository"]
# logging.warning("Changeset for %s is not installed" % toolshed_dict["name"])
# changeset_revision = "b1aa4f9d82fe"
# name = toolshed_dict["name"]
# owner = toolshed_dict["owner"]
# toolshed = "https://" + toolshed_dict["tool_shed"]
# logging.warning("Installing changeset for %s" % toolshed_dict["name"])
# self.instance.toolshed.install_repository_revision(tool_shed_url=toolshed, name=name, owner=owner,
# changeset_revision=changeset_revision,
# install_tool_dependencies=True,
# install_repository_dependencies=False,
# install_resolver_dependencies=True)
# if get_organism_tool["version"] != "2.3.4+galaxy0":
# toolshed_dict = get_organism_tool["tool_shed_repository"]
# logging.warning("Changeset for %s is not installed" % toolshed_dict["name"])
# changeset_revision = "831229e6cda2"
# name = toolshed_dict["name"]
# owner = toolshed_dict["owner"]
# toolshed = "https://" + toolshed_dict["tool_shed"]
# logging.warning("Installing changeset for %s" % toolshed_dict["name"])
# self.instance.toolshed.install_repository_revision(tool_shed_url=toolshed, name=name, owner=owner,
# changeset_revision=changeset_revision,
# install_tool_dependencies=True,
# install_repository_dependencies=False,
# install_resolver_dependencies=True)
logging.debug("Getting 'Homo sapiens' ID in instance's chado database") logging.debug("Getting 'Homo sapiens' ID in instance's chado database")
get_sapiens_id_job = self.instance.tools.run_tool( get_sapiens_id_job = self.instance.tools.run_tool(
tool_id="toolshed.g2.bx.psu.edu/repos/gga/chado_organism_get_organisms/organism_get_organisms/%s" % get_organism_tool_version, tool_id="toolshed.g2.bx.psu.edu/repos/gga/chado_organism_get_organisms/organism_get_organisms/%s" % get_organism_tool_version,
......
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