Closes #1181: use apache/parquet-testing files (#1183)

* add parquet test files with license and readme

* added and skipped test against parquet standard files

* add option for running parquet file tests

* Update marker name to match decorator (#1193)

Co-authored-by: Pierce Hayes <[email protected]>

* Changes to PR#1183: use apache/parquet-testing files (#1194)

* Add UsedModules.cfg to .gitignore (#1179)

The UsedModules.cfg file, which is generated from --saveUsedModules
was not being ignored by git, and I don't think we would ever want
a UsedModules.cfg pushed into the repo, so moving it into the
gitignore will resolve any annoyance from having to selectively not
include that file.

* Add line to pass Arrow float to Chapel side
This PR adds a check for the Arrow float type on the Chapel side,
which was left out previously, allowing float data types to be
read with `ak.read_parquet()`. With this addition, the file
`alltypes_plain.parquet` from the Apache website now runs through
`ak.read_parquet()` without fail.

* Closes #1165 drop on axis (#1177)

* Modified drop() to allow for row and column dropping. Added functionality for dropping rows in new function called by drop. Moved column drop to new function called by drop.

Updated the drop row algorithm to set the new column values in place using the superclass's __setitem__.

Updated docstrings to match new functionality.

Set default axis to 0 to conform to pandas.

* Added ak.DataFrame.drop() documentation.

* Resolving Merge Conflicts

* Added test to validate axis can only be 1 or 0.

* Updated code based on PR comments. Removed unneeded if blocks and a few other style changes.

* Updating unknown axis error.

* Correcting typo

* Update Arkouda to work with CTypes (#1185)

In Chapel 1.26, various C types from 'SysCTypes', 'SysBasic' and
'CPtr' are being brought together into a single (new) module,
'CTypes'.  In this PR, I'm adding a new user-level 'CTypes'
compatibility module that brings the pieces that Arkouda relies upon
together so that it can use the new names and organization yet still
be compiled with older compilers.

---
Signed-off-by: Brad Chamberlain <[email protected]>

* Catch all Parquet errors and report them to the client (#1188)

* Catch all Parquet errors and report them to the client
In the initial Parquet error handling code, the only errors that
were being reported were errors that came from status codes of
calls to the Parquet API, but all errors in the C++ code went
unhandled and would result in a server crash.

This PR wraps all the C++ functions in a try/catch to catch all
errors to be reported back to the client rather than crashing the
server. This approach seems to align with the philosophy of
"The server should never crash, errors should just be reported to
the client".

Additionally, a bug was identified with throwing errors in `forall`
loops within a function, which would cause a try/catch wrapping
the throwing function to not catch the resulting `TaskErrors` error
throw, but a workaround for that is to wrap `forall` loops in a
try/catch which just throws the error, which then allows the
overarching try/catch to catch and report the error, where previously
it would crash the server.

* Add unsupported type error message to getType function

* Remove the ARROWUNDEFINED variable and add some throws

* add parquet test files with license and readme

* added and skipped test against parquet standard files

* add option for running parquet file tests

* Update marker name to match decorator

* updated error message string in ParquetMsg with wrong format specifier and updated columns1 to pass assertion against ans

Co-authored-by: Ben McDonald <[email protected]>
Co-authored-by: Ben McDonald <[email protected]>
Co-authored-by: reuster986 <[email protected]>
Co-authored-by: Ethan-DeBandi99 <[email protected]>
Co-authored-by: Brad Chamberlain <[email protected]>
Co-authored-by: Pierce Hayes <[email protected]>

Co-authored-by: pierce314159 <[email protected]>
Co-authored-by: Pierce Hayes <[email protected]>
Co-authored-by: Ben McDonald <[email protected]>
Co-authored-by: Ben McDonald <[email protected]>
Co-authored-by: Ethan-DeBandi99 <[email protected]>
Co-authored-by: Brad Chamberlain <[email protected]>

resources/parquet-testing/LICENSE.txt

@@ -0,0 +1,202 @@
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resources/parquet-testing/README.md

@@ -0,0 +1,3 @@
+# Files from apache/parquet-testing
+
+The files in this directory have been copied from github.com/apache/parquet-testing and are under the Apache 2.0 license included in this directory. They are unmodified from their original state and used solely for testing parquet functionality in Arkouda.

src/ParquetMsg.chpl

@@ -415,7 +415,7 @@ module ParquetMsg {
           st.addEntry(valName, entryVal);
           rnames.append((dsetname, "pdarray", valName));
         } else {
-          var errorMsg = "DType {} not supported for Parquet reading".format(ty);
+          var errorMsg = "DType %s not supported for Parquet reading".format(ty);
           pqLogger.error(getModuleName(),getRoutineName(),getLineNumber(),errorMsg);
           return new MsgTuple(errorMsg, MsgType.ERROR);
         }

tests/conftest.py

@@ -1,8 +1,24 @@
 import os
+import pytest
 from util.test.util import get_arkouda_numlocales, start_arkouda_server, \
      TestRunningMode
 
-def pytest_configure():
+def pytest_addoption(parser):
+    parser.addoption(
+        "--optional-parquet", action="store_true", default=False, help="run optional parquet tests"
+    )
+
+def pytest_collection_modifyitems(config, items):
+    if config.getoption("--optional-parquet"):
+        # --optional-parquet given in cli: do not skip optional parquet tests
+        return
+    skip_parquet = pytest.mark.skip(reason="need --optional-parquet option to run")
+    for item in items:
+        if "optional_parquet" in item.keywords:
+            item.add_marker(skip_parquet)
+
+def pytest_configure(config):
+    config.addinivalue_line("markers", "optional_parquet: mark test as slow to run")
     port = int(os.getenv('ARKOUDA_SERVER_PORT', 5555))
     server = os.getenv('ARKOUDA_SERVER_HOST', 'localhost')
     test_server_mode = TestRunningMode(os.getenv('ARKOUDA_RUNNING_MODE','GLOBAL_SERVER'))
@@ -17,4 +33,4 @@ def pytest_configure():
             raise RuntimeError('in configuring or starting the arkouda_server: {}, check ' +
                      'environment and/or arkouda_server installation', e)
     else:
-        print('in client stack test mode with host: {} port: {}'.format(server, port))
+        print('in client stack test mode with host: {} port: {}'.format(server, port))

tests/parquet_test.py

@@ -120,3 +120,36 @@ def test_get_datasets(self):
 
         for f in glob.glob('pq_test*'):
             os.remove(f)
+
+    @pytest.mark.optional_parquet
+    def test_against_standard_files(self):
+        datadir = 'resources/parquet-testing'
+        filenames = ['alltypes_plain.parquet',
+                     'alltypes_plain.snappy.parquet',
+                     'delta_byte_array.parquet']
+        columns1 = ['id',
+                    'bool_col',
+                    'tinyint_col',
+                    'smallint_col',
+                    'int_col',
+                    'bigint_col',
+                    'float_col',
+                    'double_col',
+                    'timestamp_col']
+                    # 'date_string_col',
+                    # 'string_col']
+        columns2 = ['c_customer_id',
+                    'c_salutation',
+                    'c_first_name',
+                    'c_last_name',
+                    'c_preferred_cust_flag',
+                    'c_birth_country',
+                    'c_login',
+                    'c_email_address',
+                    'c_last_review_date']
+        for basename, ans in zip(filenames, (columns1, columns1, columns2)):
+            filename = os.path.join(datadir, basename)
+            columns = ak.get_datasets(filename, is_parquet=True)
+            self.assertListEqual(columns, ans)
+            # Merely test that read succeeds, do not check output
+            data = ak.read_parquet(filename, datasets=columns)