コード例 #1
0
ファイル: workflow.py プロジェクト: pfem-bioinfo/biomaj
    def wf_postprocess(self):
        """
        Execute post processes
        """

        # Creates a temporary symlink future_release to keep compatibility if process
        # tries to access dir with this name
        future_link = os.path.join(
            self.bank.config.get("data.dir"), self.bank.config.get("dir.version"), "future_release"
        )
        prod_dir = self.session.get_full_release_directory()
        to_dir = os.path.join(self.bank.config.get("data.dir"), self.bank.config.get("dir.version"))

        if os.path.lexists(future_link):
            os.remove(future_link)
        os.chdir(to_dir)
        os.symlink(self.session.get_release_directory(), "future_release")

        logging.info("Workflow:wf_postprocess")
        blocks = self.session._session["process"]["postprocess"]
        pfactory = PostProcessFactory(self.bank, blocks)
        res = pfactory.run()
        self.session._session["process"]["postprocess"] = pfactory.blocks

        # In any way, delete symlink
        if os.path.lexists(future_link):
            os.remove(future_link)

        return res
コード例 #2
0
ファイル: biomaj_tests.py プロジェクト: lecorguille/biomaj
 def test_postprocesses_exec_again(self):
     '''
 Execute once, set a status to false, check that False processes are executed
 '''
     b = Bank('localprocess')
     pfactory = PostProcessFactory(b)
     pfactory.run()
     self.assertTrue(pfactory.blocks['BLOCK1']['META0']['PROC0'])
     self.assertTrue(pfactory.blocks['BLOCK2']['META1']['PROC1'])
     self.assertTrue(pfactory.blocks['BLOCK2']['META1']['PROC2'])
     blocks = copy.deepcopy(pfactory.blocks)
     blocks['BLOCK2']['META1']['PROC2'] = False
     pfactory2 = PostProcessFactory(b, blocks)
     pfactory2.run()
     self.assertTrue(pfactory2.blocks['BLOCK2']['META1']['PROC2'])
コード例 #3
0
ファイル: biomaj_tests.py プロジェクト: Nurtal/TRASHEXCHANGE
 def test_postprocesses_exec_again(self):
   '''
   Execute once, set a status to false, check that False processes are executed
   '''
   b = Bank('localprocess')
   pfactory = PostProcessFactory(b)
   pfactory.run()
   self.assertTrue(pfactory.blocks['BLOCK1']['META0']['PROC0'])
   self.assertTrue(pfactory.blocks['BLOCK2']['META1']['PROC1'])
   self.assertTrue(pfactory.blocks['BLOCK2']['META1']['PROC2'])
   blocks = copy.deepcopy(pfactory.blocks)
   blocks['BLOCK2']['META1']['PROC2'] = False
   pfactory2 = PostProcessFactory(b, blocks)
   pfactory2.run()
   self.assertTrue(pfactory2.blocks['BLOCK2']['META1']['PROC2'])
コード例 #4
0
ファイル: biomaj_tests.py プロジェクト: pfem-bioinfo/biomaj
 def test_postprocesses_exec_again(self):
     """
 Execute once, set a status to false, check that False processes are executed
 """
     b = Bank("localprocess")
     pfactory = PostProcessFactory(b)
     pfactory.run()
     self.assertTrue(pfactory.blocks["BLOCK1"]["META0"]["PROC0"])
     self.assertTrue(pfactory.blocks["BLOCK2"]["META1"]["PROC1"])
     self.assertTrue(pfactory.blocks["BLOCK2"]["META1"]["PROC2"])
     blocks = copy.deepcopy(pfactory.blocks)
     blocks["BLOCK2"]["META1"]["PROC2"] = False
     pfactory2 = PostProcessFactory(b, blocks)
     pfactory2.run()
     self.assertTrue(pfactory2.blocks["BLOCK2"]["META1"]["PROC2"])
コード例 #5
0
ファイル: biomaj_tests.py プロジェクト: lecorguille/biomaj
 def test_postprocesses_setup(self):
     b = Bank('localprocess')
     pfactory = PostProcessFactory(b)
     pfactory.run(True)
     self.assertTrue(len(pfactory.threads_tasks[0]) == 2)
     self.assertTrue(len(pfactory.threads_tasks[1]) == 1)
コード例 #6
0
ファイル: biomaj_tests.py プロジェクト: Nurtal/TRASHEXCHANGE
 def test_postprocesses_setup(self):
   b = Bank('localprocess')
   pfactory = PostProcessFactory(b)
   pfactory.run(True)
   self.assertTrue(len(pfactory.threads_tasks[0])==2)
   self.assertTrue(len(pfactory.threads_tasks[1])==1)