Source code for toil.test.src.helloWorldTest
# Copyright (C) 2015-2021 Regents of the University of California
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from toil.job import Job
from toil.test import ToilTest
[docs]
class HelloWorldTest(ToilTest):
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def testHelloWorld(self):
options = Job.Runner.getDefaultOptions(self._getTestJobStorePath())
options.logLevel = "INFO"
Job.Runner.startToil(HelloWorld(), options)
[docs]
class HelloWorld(Job):
def __init__(self):
Job.__init__(self, memory=100000, cores=1, disk="3G")
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def run(self, fileStore):
fileID = self.addChildJobFn(childFn, cores=1, memory="1M", disk="3G").rv()
self.addFollowOn(FollowOn(fileID))
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def childFn(job):
with job.fileStore.writeGlobalFileStream() as (fH, fileID):
fH.write(b"Hello, World!")
return fileID
[docs]
class FollowOn(Job):
def __init__(self,fileId):
Job.__init__(self)
self.fileId=fileId
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def run(self, fileStore):
tempDir = fileStore.getLocalTempDir()
tempFilePath = "/".join([tempDir,"LocalCopy"])
with fileStore.readGlobalFileStream(self.fileId) as globalFile:
with open(tempFilePath, "wb") as localFile:
localFile.write(globalFile.read())