[ARVADOS] updated: 66622dea0bb8725d0cbec0976175d11162b17815

[Git user]

Summary of changes:
 sdk/cwl/arvados_cwl/__init__.py |  4 ++--
 sdk/cwl/arvados_cwl/runner.py   |  3 +++
 sdk/cwl/tests/test_submit.py    | 50 +++++++++++++++++++++++++++++++++++++++++
 3 files changed, 55 insertions(+), 2 deletions(-)

       via  66622dea0bb8725d0cbec0976175d11162b17815 (commit)
      from  e1b133b13f9ac50a87051d07c36a3904d6f01028 (commit)

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commit 66622dea0bb8725d0cbec0976175d11162b17815
Author: Peter Amstutz <peter.amstutz at curoverse.com>
Date:   Thu Dec 1 13:36:55 2016 -0500

    10651: Check --submit-runner-ram has a valid value.  Add tests.

diff --git a/sdk/cwl/arvados_cwl/__init__.py b/sdk/cwl/arvados_cwl/__init__.py
index 817efae..ce84b81 100644
--- a/sdk/cwl/arvados_cwl/__init__.py
+++ b/sdk/cwl/arvados_cwl/__init__.py
@@ -529,8 +529,8 @@ def arg_parser():  # type: () -> argparse.ArgumentParser
                         dest="compute_checksum")
 
     parser.add_argument("--submit-runner-ram", type=int,
-                       help="RAM (in MiB) required for the workflow runner job.",
-                       default=0)
+                        help="RAM (in MiB) required for the workflow runner job (default 1024)",
+                        default=1024)
 
     parser.add_argument("workflow", type=str, nargs="?", default=None, help="The workflow to execute")
     parser.add_argument("job_order", nargs=argparse.REMAINDER, help="The input object to the workflow.")
diff --git a/sdk/cwl/arvados_cwl/runner.py b/sdk/cwl/arvados_cwl/runner.py
index 373424c..0eb3562 100644
--- a/sdk/cwl/arvados_cwl/runner.py
+++ b/sdk/cwl/arvados_cwl/runner.py
@@ -177,6 +177,9 @@ class Runner(object):
         else:
             self.submit_runner_ram = 1024
 
+        if self.submit_runner_ram <= 0:
+            raise Exception("Value of --submit-runner-ram must be greater than zero")
+
     def update_pipeline_component(self, record):
         pass
 
diff --git a/sdk/cwl/tests/test_submit.py b/sdk/cwl/tests/test_submit.py
index e49a09f..dea04b3 100644
--- a/sdk/cwl/tests/test_submit.py
+++ b/sdk/cwl/tests/test_submit.py
@@ -275,6 +275,36 @@ class TestSubmit(unittest.TestCase):
         self.assertEqual(capture_stdout.getvalue(),
                          stubs.expect_pipeline_uuid + '\n')
 
+
+    @mock.patch("time.sleep")
+    @stubs
+    def test_submit_runner_ram(self, stubs, tm):
+        capture_stdout = cStringIO.StringIO()
+        exited = arvados_cwl.main(
+            ["--submit", "--no-wait", "--debug", "--submit-runner-ram=2048",
+             "tests/wf/submit_wf.cwl", "tests/submit_test_job.json"],
+            capture_stdout, sys.stderr, api_client=stubs.api)
+        self.assertEqual(exited, 0)
+
+        stubs.expect_pipeline_instance["components"]["cwl-runner"]["runtime_constraints"]["min_ram_mb_per_node"] = 2048
+
+        expect_pipeline = copy.deepcopy(stubs.expect_pipeline_instance)
+        stubs.api.pipeline_instances().create.assert_called_with(
+            body=expect_pipeline)
+        self.assertEqual(capture_stdout.getvalue(),
+                         stubs.expect_pipeline_uuid + '\n')
+
+
+    @mock.patch("time.sleep")
+    @stubs
+    def test_submit_invalid_runner_ram(self, stubs, tm):
+        capture_stdout = cStringIO.StringIO()
+        exited = arvados_cwl.main(
+            ["--submit", "--no-wait", "--debug", "--submit-runner-ram=-2048",
+             "tests/wf/submit_wf.cwl", "tests/submit_test_job.json"],
+            capture_stdout, sys.stderr, api_client=stubs.api)
+        self.assertEqual(exited, 1)
+
     @mock.patch("time.sleep")
     @stubs
     def test_submit_output_name(self, stubs, tm):
@@ -439,6 +469,26 @@ class TestSubmit(unittest.TestCase):
         self.assertEqual(capture_stdout.getvalue(),
                          stubs.expect_container_request_uuid + '\n')
 
+    @stubs
+    def test_submit_container_runner_ram(self, stubs):
+        capture_stdout = cStringIO.StringIO()
+        try:
+            exited = arvados_cwl.main(
+                ["--submit", "--no-wait", "--api=containers", "--debug", "--submit-runner-ram=2048",
+                 "tests/wf/submit_wf.cwl", "tests/submit_test_job.json"],
+                capture_stdout, sys.stderr, api_client=stubs.api, keep_client=stubs.keep_client)
+            self.assertEqual(exited, 0)
+        except:
+            logging.exception("")
+
+        stubs.expect_container_spec["runtime_constraints"]["ram"] = 2048*1024*1024
+
+        expect_container = copy.deepcopy(stubs.expect_container_spec)
+        stubs.api.container_requests().create.assert_called_with(
+            body=expect_container)
+        self.assertEqual(capture_stdout.getvalue(),
+                         stubs.expect_container_request_uuid + '\n')
+
     @mock.patch("arvados.commands.keepdocker.find_one_image_hash")
     @mock.patch("cwltool.docker.get_image")
     @mock.patch("arvados.api")

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