8. Testing

create_test is the tool we use to test both CIME and CIME-driven models. It can be used as an easy way to run a single basic test or an entire suite of tests. create_test runs a test suite in parallel for improved performance. It is the driver behind the automated nightly testing of cime-driven models.

Running create_test is generally resource intensive, so run it in a manner appropriate for your system, e.g. using ‘nice’, batch queues, nohup, the --parallel-jobs option to create_test, etc. It will create and submit additional jobs to the batch queue (if one is available).

An individual test can be run as:

$CIMEROOT/scripts/create_test $test_name

Multiple tests can be run similarly, by listing all of the test names on the command line:

$CIMEROOT/scripts/create_test  $test_name  $test_name2

or by putting the test names into a file, one name per line:

$CIMEROOT/scripts/create_test -f $file_of_test_names

A pre-defined suite of tests can by run using the --xml options to create_test, which harvest test names from testlist*.xml files. As described in https://github.com/ESCOMP/ctsm/wiki/System-Testing-Guide, to determine what pre-defined test suites are available and what tests they contain, you can run query_testlists.

Test suites are retrieved in create_test via 3 selection attributes:

--xml-category your_category   The test category.
--xml-machine  your_machine    The machine.
--xml-compiler your_compiler   The compiler.
If none of these 3 are used, the default values are ‘none’.
If any of them are used, the default for the unused options is ‘all’.
Existing values of these attributes can be seen by running query_testlists.

The search for test names can be restricted to a single test list using:

--xml-testlist your_testlist

Omitting this results in searching all testlists listed in:

cime/config/{cesm,e3sm}/config_files.xml

8.1. Testname syntax

Tests must be named with the following forms, [ ]=optional:

TESTTYPE[_MODIFIERS].GRID.COMPSET[.MACHINE_COMPILER][.GROUP-TESTMODS]

NAME PART

TESTTYPE

the general type of test, e.g. SMS. Options are listed in the following table and config_tests.xml.

MODIFIERS

These are changes to the default settings for the test. See the following table and test_scheduler.py.

GRID

The model grid (can be an alias).

COMPSET

alias of the compset, or long name, if no --xml arguments are used.

MACHINE

This is optional; if this value is not supplied, create_test will probe the underlying machine.

COMPILER

If this value is not supplied, use the default compiler for MACHINE.

GROUP-TESTMODS

This is optional. This points to a directory with user_nl_xxx files or a shell_commands that can be used to make namelist and XML modifications prior to running a test.


TESTTYPE

Description

ERS

Exact restart from startup (default 6 days + 5 days)
Do an 11 day initial test - write a restart at day 6. (file suffix: base)
Do a 5 day restart test, starting from restart at day 6. (file suffix: rest)
Compare component history files ‘.base’ and ‘.rest’ at day 11.
They should be identical.

ERS2

Exact restart from startup (default 6 days + 5 days).

Do an 11 day initial test without making restarts. (file suffix: base)
Do an 11 day restart test stopping at day 6 with a restart, then resuming from restart at day 6. (file suffix: rest)
Compare component history files “.base” and “.rest” at day 11.

ERT

Exact restart from startup, default 2 month + 1 month (ERS with info DBUG = 1).

IRT

Exact restart from startup, (default 4 days + 7 days) with restart from interim file.

ERIO

Exact restart from startup with different PIO methods, (default 6 days + 5 days).

ERR

Exact restart from startup with resubmit, (default 4 days + 3 days).

ERRI

Exact restart from startup with resubmit, (default 4 days + 3 days). Tests incomplete logs option for st_archive.

ERI

hybrid/branch/exact restart test, default (by default STOP_N is 22 days)
ref1case

Do an initial run for 3 days writing restarts at day 3. ref1case is a clone of the main case. Short term archiving is on.

ref2case (Suffix hybrid)

Do a hybrid run for default 19 days running with ref1 restarts from day 3, and writing restarts at day 10. ref2case is a clone of the main case. Short term archiving is on.

case

Do a branch run, starting from restarts written in ref2case, for 9 days and writing restarts at day 5. Short term archiving is off.

case (Suffix base)

Do a restart run from the branch run restarts for 4 days. Compare component history files ‘.base’ and ‘.hybrid’ at day 19. Short term archiving is off.

ERP

PES counts hybrid (OPENMP/MPI) restart bit for bit test from startup, (default 6 days + 5 days).

Initial PES set up out of the box Do an 11 day initial test - write a restart at day 6. (file suffix base) Half the number of tasks and threads for each component. Do a 5 day restart test starting from restart at day 6. (file suffix rest) Compare component history files ‘.base’ and ‘.rest’ at day 11. This is just like an ERS test but the tasks/threading counts are modified on restart

PEA

Single PE bit for bit test (default 5 days)

Do an initial run on 1 PE with mpi library. (file suffix: base) Do the same run on 1 PE with mpiserial library. (file suffix: mpiserial) Compare base and mpiserial.

PEM

Modified PE counts for MPI(NTASKS) bit for bit test (default 5 days)

Do an initial run with default PE layout (file suffix: base) Do another initial run with modified PE layout (NTASKS_XXX => NTASKS_XXX/2) (file suffix: modpes) Compare base and modpes

PET

Modified threading OPENMP bit for bit test (default 5 days)

Do an initial run where all components are threaded by default. (file suffix: base) Do another initial run with NTHRDS=1 for all components. (file suffix: single_thread) Compare base and single_thread.

PFS

Performance test setup. History and restart output is turned off. (default 20 days)

ICP

CICE performance test.

OCP

POP performance test. (default 10 days)

MCC

Multi-driver validation vs single-driver (both multi-instance). (default 5 days)

NCK

Multi-instance validation vs single instance - sequential PE for instances (default length)

Do an initial run test with NINST 1. (file suffix: base) Do an initial run test with NINST 2. (file suffix: multiinst for both _0001 and _0002) Compare base and _0001 and _0002.

REP

Reproducibility: Two identical runs are bit for bit. (default 5 days)

SBN

Smoke build-namelist test (just run preview_namelist and check_input_data).

SMS

Smoke startup test (default 5 days)

Do a 5 day initial test. (file suffix: base)

SEQ

Different sequencing bit for bit test. (default 10 days)

Do an initial run test with out-of-box PE-layout. (file suffix: base) Do a second run where all root pes are at pe-0. (file suffix: seq) Compare base and seq.

DAE

Data assimilation test, default 1 day, two DA cycles, no data modification.

PRE

Pause-resume test: by default a bit for bit test of pause-resume cycling.

Default 5 hours, five pause/resume cycles, no data modification.


MODIFIERS

Description

_C#

Set number of instances to # and use the multi driver (can’t use with _N).

_CG

CALENDAR set to “GREGORIAN”

_D

XML variable DEBUG set to “TRUE”

_I

Marker to distinguish tests with same name - ignored.

_Lo#

Run length set by o (STOP_OPTION) and # (STOP_N).
o = {“y”:”nyears”, “m”:”nmonths”, “d”:”ndays”,
“h”:”nhours”, “s”:”nseconds”, “n”:”nsteps”}

_Mx

Set MPI library to x.

_N#

Set number of instances to # and use a single driver (can’t use with _C).

_Px

Set create_newcase’s --pecount to x, which is usually N (tasks) or NxM (tasks x threads per task).

_R

For testing in PTS_MODE or Single Column Model (SCM) mode. For PTS_MODE, compile with mpi-serial.

_Vx

Set driver to x.

TESTMODS

Description

GROUP

A subdirectory of testmods_dirs and the parent directory of various testmods.

-

Replaces ‘/’ in the path name where the testmods are found.

TESTMODS

A subdirectory of GROUP containing files which set non-default values of the set-up and run-time variables via namelists or xml_change commands. See “Adding tests”: CESM. Examples include

GROUP-TESTMODS = cam-outfrq9s points to
$cesm/components/cam/cime_config/testdefs/testmods_dirs/cam/outfrq9s
while allactive-defaultio points to
$cesm/cime_config/testmods_dirs/allactive/defaultio

Each test run by create_test includes the following mandatory steps:

  • CREATE_NEWCASE: creating the create

  • XML: xml changes to case based on test settings

  • SETUP: setup case (case.setup)

  • SHAREDLIB_BUILD: build sharedlibs

  • MODEL_BUILD: build module (case.build)

  • SUBMIT: submit test (case.submit)

  • RUN: run test test

And the following optional phases:

  • NLCOMP: Compare case namelists against baselines

  • THROUGHPUT: Compare throughput against baseline throughput

  • MEMCOMP: Compare memory usage against baseline memory usage

  • MEMLEAK: Check for memleak

  • COMPARE: Used to track test-specific comparions, for example, an ERS test would have a COMPARE_base_rest phase representing the check that the base result matched the restart result.

  • GENERATE: Generate baseline results

  • BASELINE: Compare results against baselines

Each test may be in one of the following states:

  • PASS: The phase was executed successfully

  • FAIL: We attempted to execute this phase, but it failed. If this phase is mandatory, no further progress will be made on this test. A detailed explanation of the failure should be in TestStatus.log.

  • PEND: This phase will be run or is currently running but not complete

The current state of a test is represented in the file $CASEROOT/TestStatus

All output from the CIME infrastructure regarding this test will be put in the file $CASEROOT/TestStatus.log

A cs.status.$testid script will be put in the test root. This script will allow you to see the current status of all your tests.

8.2. Query_testlists

$CIMEROOT/scripts/query_testlists gathers descriptions of the tests and testlists available for CESM, the components, and projects.

The --xml-{compiler,machine,category,testlist} arguments can be used as in create_test (above) to focus the search. The ‘category’ descriptor of a test can be used to run a group of associated tests at the same time. The available categories, with the tests they encompass, can be listed by:

./query_testlists --define-testtypes

The --show-options argument does the same, but displays the ‘options’ defined for the tests, such as queue, walltime, etc..

8.3. Using create_test (E3SM)

Usage will differ slightly depending on if you’re using E3SM or CESM.

Using examples to illustrate common use cases

To run a test:

./create_test SMS.f19_f19.A

To run a test with a non-default compiler:

./create_test SMS.f19_f19.A --compiler intel

To run a test with baseline comparisons against baseline name ‘master’:

./create_test SMS.f19_f19.A -c -b master

To run a test and update baselines with baseline name ‘master’:

./create_test SMS.f19_f19.A -g -b master

To run a test with a non-default test-id:

./create_test SMS.f19_f19.A -t my_test_id

To run a test and use a non-default test-root for your case dir:

./create_test SMS.f19_f19.A -t $test_root

To run a test and use and put case, build, and run dirs all in the same root:

./create_test SMS.f19_f19.A --output-root $output_root

To run a test and force it to go into a certain batch queue:

./create_test SMS.f19_f19.A -q myqueue

To run a test and use a non-default project (can impact things like directory paths and acct for batch system):

./create_test SMS.f19_f19.A -p myproj

To run two tests:

./create_test SMS.f19_f19.A SMS.f19_f19.B

To run a test suite:

./create_test e3sm_developer

To run a test suite excluding a specific test:

./create_test e3sm_developer ^SMS.f19_f19.A

See create_test -h for the full list of options

Interpreting test output is pretty easy, looking at an example:

% ./create_test SMS.f19_f19.A

Creating test directory /home/jgfouca/e3sm/scratch/SMS.f19_f19.A.melvin_gnu.20170504_163152_31aahy
RUNNING TESTS:
  SMS.f19_f19.A.melvin_gnu
Starting CREATE_NEWCASE for test SMS.f19_f19.A.melvin_gnu with 1 procs
Finished CREATE_NEWCASE for test SMS.f19_f19.A.melvin_gnu in 4.170537 seconds (PASS)
Starting XML for test SMS.f19_f19.A.melvin_gnu with 1 procs
Finished XML for test SMS.f19_f19.A.melvin_gnu in 0.735993 seconds (PASS)
Starting SETUP for test SMS.f19_f19.A.melvin_gnu with 1 procs
Finished SETUP for test SMS.f19_f19.A.melvin_gnu in 11.544286 seconds (PASS)
Starting SHAREDLIB_BUILD for test SMS.f19_f19.A.melvin_gnu with 1 procs
Finished SHAREDLIB_BUILD for test SMS.f19_f19.A.melvin_gnu in 82.670667 seconds (PASS)
Starting MODEL_BUILD for test SMS.f19_f19.A.melvin_gnu with 4 procs
Finished MODEL_BUILD for test SMS.f19_f19.A.melvin_gnu in 18.613263 seconds (PASS)
Starting RUN for test SMS.f19_f19.A.melvin_gnu with 64 procs
Finished RUN for test SMS.f19_f19.A.melvin_gnu in 35.068546 seconds (PASS). [COMPLETED 1 of 1]
At test-scheduler close, state is:
PASS SMS.f19_f19.A.melvin_gnu RUN
  Case dir: /home/jgfouca/e3sm/scratch/SMS.f19_f19.A.melvin_gnu.20170504_163152_31aahy
test-scheduler took 154.780044079 seconds

You can see that create_test informs the user of the case directory and of the progress and duration of the various test phases.

8.4. Managing baselines

A big part of testing is managing your baselines (sometimes called gold results). We have provided tools to help the user do this without having to repeat full runs of test cases with create_test .

bless_test_results: Takes a batch of cases of tests that have already been run and copy their results to a baseline area.

compare_test_results: Takes a batch of cases of tests that have already been run and compare their results to a baseline area.

Take a batch of results for the jenkins user for the testid ‘mytest’ and copy the results to baselines for ‘master’:

./bless_test_results -r /home/jenkins/e3sm/scratch/jenkins/ -t mytest -b master

Take a batch of results for the jenkins user for the testid ‘mytest’ and compare the results to baselines for ‘master’:

./compare_test_results -r /home/jenkins/e3sm/scratch/jenkins/ -t mytest -b master

8.5. Adding tests

E3SM

Open the config/e3sm/tests.py file, you’ll see a python dict at the top of the file called _TESTS, find the test category you want to change in this dict and add your testcase to the list. Note the comment at the top of this file indicating that you add a test with this format: test>.<grid>.<compset>, and then there is a second argument for mods.

CESM

Select a compset to test. If you need to test a non-standard compset, define an alias for it in the most appropriate config_compsets.xml in

$cesm/components/$component/cime_config
$cesm/cime/src/drivers/mct/cime_config
$cesm/cime_config

If you want to test non-default namelist or xml variable values for your chosen compset, you might find them in a suitable existing testmods directory (see “branching”, this section, for locations). If not, then populate a new testmods directory with the needed files (see “contents”, below). Note; do not use ‘-’ in the testmods directory name because it has a special meaning to create_test. Testlists and testmods live in different paths for cime, drv, and components. The relevant directory branching looks like

components/$component/cime_config/testdefs/
   testlist_$component.xml
   testmods_dirs/$component/{TESTMODS1,TESTMODS2,...}
cime/src/drivers/mct/cime_config/testdefs/
   testlist_drv.xml
   testmods_dirs/drv/{default,5steps,...}
cime_config/
   testlist_allactive.xml
   testmods_dirs/allactive/{defaultio,...}

The contents of each testmods directory can include

user_nl_$components    namelist variable=value pairs
shell_commands         xmlchange commands
user_mods              a list of other GROUP-TESTMODS which should be imported
                       but at a lower precedence than the local testmods.

If this test will only be run as a single test, you can now create a test name and follow the individual test instructions for create_test. If you want this test to be part of a suite, then it must be described in the relevant testlists_YYY.xml file.

8.6. CIME’s scripts regression tests

$CIMEROOT/scripts/lib/CIME/tests/scripts_regression_tests.py is the suite of internal tests we run for the stand-alone CIME testing. With no arguments, it will run the full suite. You can limit testing to a specific test class or even a specific test within a test class.

Run full suite:

python scripts/lib/CIME/tests/scripts_regression_tests.py

Run a test class:

python scripts/lib/CIME/tests/scripts_regression_tests.py CIME.tests.test_unit_case

Run a specific test:

python scripts/lib/CIME/tests/scripts_regression_tests.py CIME.tests.test_unit_case.TestCaseSubmit.test_check_case

If a test fails, the unittest module that drives scripts_regression_tests wil note the failure, but won’t print the output of the test until testing has completed. When there are failures for a test, the case directories for that test will not be cleaned up so that the user can do a post-mortem analysis. The user will be notified of the specific directories that will be left for them to examine.

The test suite can also be ran with pytest and pytest-cov. After the test suite is done running a coverage report will be presented.

Install dependencies:

python -m pip install pytest pytest-cov

Run full suite:

pytest -vvv

Run just unit tests:

pytest -vvv scripts/lib/CIME/tests/test_unit*

Run a test class:

pytest -vvv scripts/lib/CIME/tests/test_unit_case.py

Run a specific test:

pytest -vvv scripts/lib/CIME/tests/test_unit_case.py::TestCaseSubmit::test_check_case

More description can be found in https://github.com/ESCOMP/ctsm/wiki/System-Testing-Guide