Encountered an internal AutoML error- ClientException: Message: No objects to concatenate - azure-machine-learning-service

I am trying to implement Hierarchical time series forecasting on azureautoml pipelines.
I followed this notebook for implementation
https://github.com/Azure/azureml-examples/blob/main/v1/python-sdk/tutorials/automl-with-azureml/forecasting-hierarchical-timeseries/auto-ml-forecasting-hierarchical-timeseries.ipynb
While I ran training pipeline on compute instance it worked, but when I am running the same on compute cluster it breaks at hts-proportion-calculation part.
This is the error I am getting,
system error:
Encountered an internal AutoML error. Error Message/Code: ClientException. Additional Info: ClientException:
      Message: No objects to concatenate
      InnerException: None
      ErrorResponse
{
"error": {
"message": "No objects to concatenate"
}
}
logs :
Loading arguments for scenario proportions-calculation
adding argument --input-medatadata
adding argument --hts-graph
adding argument --enable-event-logger
Input arguments dict is {'--input-medatadata': '/mnt/azureml/cr/j/85509be625484b6caa3c1d97b7ab2e33/cap/data-capability/wd/INPUT_automl_training_workspaceblobstore/azureml/17ca5ae7-7269-4246-888f-e781071e3f5c/automl_training', '--hts-graph': '/mnt/azureml/cr/j/85509be625484b6caa3c1d97b7ab2e33/cap/data-capability/wd/INPUT_hts_graph_workspaceblobstore/azureml/a2c1b15a-c895-41e8-b6a6-1ca37ebe9e77/hts_graph', '--enable-event-logger': None}
Unknown file to proceed outputs.txt
processing: outputs.txt with type None.
Cleaning up all outstanding Run operations, waiting 300.0 seconds
3 items cleaning up...
Cleanup took 0.001676321029663086 seconds
Traceback (most recent call last):
File "proportions_calculation_wrapper.py", line 47, in <module>
runtime_wrapper.run()
File "/azureml-envs/azureml_e34d0633ffc4cb2fa25d91e3da5f59be/lib/python3.7/site-packages/azureml/train/automl/runtime/_many_models/automl_pipeline_step_wrapper.py", line 63, in run
self._run()
File "/azureml-envs/azureml_e34d0633ffc4cb2fa25d91e3da5f59be/lib/python3.7/site-packages/azureml/train/automl/runtime/_hts/proportions_calculation.py", line 44, in _run
proportions_calculation(self.arguments_dict, self.event_logger, script_run=self.step_run)
File "/azureml-envs/azureml_e34d0633ffc4cb2fa25d91e3da5f59be/lib/python3.7/site-packages/azureml/train/automl/runtime/_hts/proportions_calculation.py", line 173, in proportions_calculation
proportion_files_list, forecasting_parameters.time_column_name, graph.label_column_name
File "/azureml-envs/azureml_e34d0633ffc4cb2fa25d91e3da5f59be/lib/python3.7/site-packages/azureml/train/automl/runtime/_hts/proportions_calculation.py", line 92, in calculate_time_agg_sum_for_all_files
df = pd.concat(pool.map(concat_func, files_batches), ignore_index=True)
File "/azureml-envs/azureml_e34d0633ffc4cb2fa25d91e3da5f59be/lib/python3.7/site-packages/pandas/util/_decorators.py", line 311, in wrapper
return func(*args, **kwargs)
File "/azureml-envs/azureml_e34d0633ffc4cb2fa25d91e3da5f59be/lib/python3.7/site-packages/pandas/core/reshape/concat.py", line 304, in concat
sort=sort,
File "/azureml-envs/azureml_e34d0633ffc4cb2fa25d91e3da5f59be/lib/python3.7/site-packages/pandas/core/reshape/concat.py", line 351, in __init__
raise ValueError("No objects to concatenate")
ValueError: No objects to concatenate
Please let me know how can I resolve this issue ?

This error was incurred as Iteration timeout was not less than experiment timeout , but the system error & logs are a kind of misleading.
df = pd.concat(pool.map(concat_func, files_batches), ignore_index=True)
logs was pointing to pandas "No objects to concatenate"
This error can be overcome by setting iterationtimeout value less than experimenttime out value.
I had set iteration_timeout_minutes=60 which caused the error.
automl_settings = AutoMLConfig(
task="forecasting",
primary_metric="normalized_root_mean_squared_error",
experiment_timeout_hours=1,
label_column_name=label_column_name,
track_child_runs=False,
forecasting_parameters=forecasting_parameters,
pipeline_fetch_max_batch_size=15,
model_explainability=model_explainability,
n_cross_validations="auto", # Feel free to set to a small integer (>=2) if runtime is an issue.
cv_step_size="auto",
# The following settings are specific to this sample and should be adjusted according to your own needs.
iteration_timeout_minutes=10,
iterations=15,
)

We are able to run the sample successfully using the compute cluster as given below.
from azureml.core.compute import ComputeTarget, AmlCompute
# Name your cluster
compute_name = "hts-compute"
if compute_name in ws.compute_targets:
compute_target = ws.compute_targets[compute_name]
if compute_target and type(compute_target) is AmlCompute:
print("Found compute target: " + compute_name)
else:
print("Creating a new compute target...")
provisioning_config = AmlCompute.provisioning_configuration(
vm_size="STANDARD_D16S_V3", max_nodes=20
)
# Create the compute target
compute_target = ComputeTarget.create(ws, compute_name, provisioning_config)
# Can poll for a minimum number of nodes and for a specific timeout.
# If no min node count is provided it will use the scale settings for the cluster
compute_target.wait_for_completion(
show_output=True, min_node_count=None, timeout_in_minutes=20
)
# For a more detailed view of current cluster status, use the 'status' property
print(compute_target.status.serialize())

Related

Stable diffusion with openVino: Failed to set input blob with precision: I64, if CNNNetwork input blob precision is: FP64

I'm trying to make this version work on my CPU (Linux):
https://github.com/bes-dev/stable_diffusion.openvino
And it works fine without any initial image. But when I try to pass an initial image, I get this error:
Traceback (most recent call last):
File "/home/ideruga/workspace/stable_diffusion.openvino/demo.py", line 79, in <module>
main(args)
File "/home/ideruga/workspace/stable_diffusion.openvino/demo.py", line 39, in main
image = engine(
File "/home/ideruga/workspace/stable_diffusion.openvino/stable_diffusion_engine.py", line 188, in __call__
noise_pred = result(self.unet.infer_new_request({
File "/home/ideruga/anaconda3/lib/python3.9/site-packages/openvino/runtime/ie_api.py", line 266, in infer_new_request
return self.create_infer_request().infer(inputs)
......
File "/home/ideruga/anaconda3/lib/python3.9/site-packages/openvino/runtime/ie_api.py", line 31, in set_scalar_tensor
request.set_tensor(key, tensor)
RuntimeError: [ PARAMETER_MISMATCH ] Failed to set input blob with precision: I64, if CNNNetwork input blob precision is: FP64
It's bizarre, because I am not messing with any parameters. It's as if model that it downloads is not compatible with parsed input image.
I've actually found a bug in the linked repository, I'll submit a fix later today. The used model expects f64 but is fed with i64 value. I'll post a comment with the PR when it's submitted.

PyAlgoTrade: How to use resampleBarFeed with multiple instruments?

I am resampling a few instruments with [pyalogtrade][1].
I have a base barfeed for 1-minute data, which is working fine
I have added a resampler to resample for 2 minutes, as follows:
class Strategy(strategy.BaseStrategy):
def __init__(self, instruments,feed, brk):
strategy.BaseStrategy.__init__(self, feed, brk)
self.__position = None
self.__instrument = instruments
self._resampledBF = self.resampleBarFeed(2 * bar.Frequency.MINUTE, self.resampledOnBar_2minute)
self.info ("initialised strategy")
I got this error:
2022-09-08 12:36:00,396 strategy [INFO] 1-MIN: INSTRUMENT1: Date: 2022-09-08 12:35:00+05:30 Open: 17765.55 High: 17774.5 Low: 17765.35 Close: 1777 myStrategy.run()
File "pyalgotrade\pyalgotrade\strategy\__init__.py", line 514, in run
self.__dispatcher.run()
File "pyalgotrade\pyalgotrade\dispatcher.py", line 109, in run
eof, eventsDispatched = self.__dispatch()
File "pyalgotrade\pyalgotrade\dispatcher.py", line 97, in __dispatch
if self.__dispatchSubject(subject, smallestDateTime):
File "pyalgotrade\pyalgotrade\dispatcher.py", line 75, in __dispatchSubject ret = subject.dispatch() is True
File "pyalgotrade\pyalgotrade\feed\__init__.py", line 106, in dispatch
dateTime, values = self.getNextValuesAndUpdateDS()
File "pyalgotrade\pyalgotrade\feed\__init__.py", line 81, in getNextValuesAndUpdateDS
dateTime, values = self.getNextValues()
File "pyalgotrade\pyalgotrade\barfeed\__init__.py", line 101, in getNextValues
raise Exception(
Exception: Bar date times are not in order. Previous datetime was 2022-09-08 12:34:00+05:30 and current datetime is 2022-09-08 12:34:00+05:30
However, the error does not occur if the self._resampledBF = self.resampleBarFeed is commented out.
Also, on searching online, I found a similar report/ possible fix reported earlier on Google groups: https://groups.google.com/g/pyalgotrade/c/v9ht1Bfz5Ds/m/ojF8uH8sFwAJ
The solution recommended was:
Sorry never mind, I fixed it. Using current timestamp instead of the one from IB and that fixed it.
Not sure if this is has been resolved.
Would like to know how to resolve the error while resampling.

PYSPARK org.apache.spark.sql.AnalysisException: cannot resolve '`INPUT__FILE__NAME`' given input columns

I using configuration file as below :
"trial":{
"stage_table": "trial_stg",
"folder_location": "Trial",
"column_mapping": [
{
"source_column": "(split(INPUT__FILE__NAME, '\\/')[11])",
"source_datatype": "text",
"target_column": "indication",
"target_datatype": "text",
"transform_type": "expression",
"validate": false
}
I am trying to get file name using INPUT__FILE__NAME function in pyspark but I am getting issue.
Below is the code after reading this config file :
def query_expression_builder(mapping):
print("Inside query_expression_builder")
print("mapping :",mapping)
def match_transform_type(map_col):
print("Inside match_transform_type")
if map_col.get('transform_type') is None:
print("transform_type is",map_col.get('transform_type'))
print("map_col inside if :",map_col)
return f"`{map_col['source_column']}` AS {map_col['target_column']}"
elif str(map_col.get('transform_type')).__eq__('expression'):
print("transform_type is",map_col.get('transform_type'))
print("map_col inside elif :",map_col)
return f"{map_col['source_column']} AS {map_col['target_column']}"
else:
print("transform_type is",map_col.get('transform_type'))
print("map_col inside else :",map_col)
return f"`{map_col['source_column']}` AS {map_col['target_column']}"
if mapping is None:
print("Check for mapping is None")
return []
else:
print("Mapping is not None")
return list(map(lambda col_mapping: match_transform_type(map_col=col_mapping), mapping))
def main():
query = query_expression_builder\
(mapping=config['file_table_mapping'][tbl]['column_mapping'])
print(f"Table = {tbl} Executing query {query}")
file_path = f"s3://{config['raw_bucket']}/{config['landing_directory']}/{config['file_table_mapping'][tbl]['folder_location']}/{config_audit['watermark_timestamp']}*.csv"
write_df = spark.read.csv(path=file_path, header=True,\
inferSchema=False).selectExpr(query) \
.withColumn("prcs_run_id", func.lit(config_audit['prcs_run_id']))\
.withColumn("job_run_id",\
func.lit(config_audit['job_run_id']))\
.withColumn("ins_ts", func.lit(ins_ts))\
.withColumn("rec_crt_user", func.lit(config["username"]))
write_df.show()
Below is the error I am getting :
"cannot resolve '`INPUT__FILE__NAME`' given input columns: [Pediatric Patients included (Y/N), Trial registry number, Number of patients, Sponsor, Number of treatment arms, Multicenter study, Trial Conclusion, Clinical Phase, Study Population, Country Codes, Exclusion criteria, Trial ID, Trial AcronymDerived, Comments, Countries, Trial registry name, Sample size calculation details, Randomisation, Blinding, Trial Comments, Trial start year, Trial end year, Inclusion criteria, Study treatment, Trial design, Controlled trial, Trial Acronym, Trial Control, Asymptomatic patients, Analysis method details]; line 1 pos 7;\n'Project ['split('INPUT__FILE__NAME, /)[11] AS indication#4346, Trial ID#4286 AS trial_id#4347, Trial Acronym#4287 AS trial_acronym#4348, Trial AcronymDerived#4288 AS trial_acronym_derived#4349, Sponsor#4289 AS sponsor#4350, Asymptomatic patients#4290 AS asymptomatic_patients#4351, Pediatric Patients included (Y/N)#4291 AS pediatric_patients_included#4352, Number of patients#4292 AS num_of_patients#4353, Number of treatment arms#4293 AS num_of_treatment_arms#4354, Trial start year#4294 AS trial_strt_yr#4355, Trial end year#4295 AS trial_end_yr#4356, Clinical Phase#4296 AS clinical_phase#4357, Study Population#4297 AS study_population#4358, Study treatment#4298 AS study_treatment#4359, Randomisation#4299 AS randomization#4360, Controlled trial#4300 AS controlled_trial#4361, Trial Control#4301 AS trial_control#4362, Blinding#4302 AS blinding#4363, Trial registry name#4303 AS trial_registry_name#4364, Trial registry number#4304 AS trial_registry_num#4365, Countries#4305 AS countries#4366, Country Codes#4306 AS country_codes#4367, Trial design#4307 AS trial_design#4368, Multicenter study#4308 AS multicenter_study#4369, ... 7 more fields]\n+- Relation[Trial ID#4286,Trial Acronym#4287,Trial AcronymDerived#4288,Sponsor#4289,Asymptomatic patients#4290,Pediatric Patients included (Y/N)#4291,Number of patients#4292,Number of treatment arms#4293,Trial start year#4294,Trial end year#4295,Clinical Phase#4296,Study Population#4297,Study treatment#4298,Randomisation#4299,Controlled trial#4300,Trial Control#4301,Blinding#4302,Trial registry name#4303,Trial registry number#4304,Countries#4305,Country Codes#4306,Trial design#4307,Multicenter study#4308,Inclusion criteria#4309,... 6 more fields] csv\n"
Traceback (most recent call last):
File "/mnt/yarn/usercache/root/appcache/application_1594568207850_0001/container_1594568207850_0001_01_000001/pyspark.zip/pyspark/sql/utils.py", line 63, in deco
return f(*a, **kw)
File "/mnt/yarn/usercache/root/appcache/application_1594568207850_0001/container_1594568207850_0001_01_000001/py4j-0.10.7-src.zip/py4j/protocol.py", line 328, in get_return_value
format(target_id, ".", name), value)
py4j.protocol.Py4JJavaError: An error occurred while calling o529.selectExpr.
: org.apache.spark.sql.AnalysisException: cannot resolve '`INPUT__FILE__NAME`' given input columns:
How can I use INPUT__FILE__NAME function? I have already enabled hive support in my code. Or is there any other way to do this? I cannot find anything on net on how to use this function.
Try by using single underscore(_) in input_file_name() instead of double underscore.
Example:
from pyspark.sql.functions import *
sql("select *,input_file_name() from tmp")
#or
df.withColumn("filename",input_file_name()).show()

Dataflow job fails with HttpError, NotImplementedError

I'm running a Dataflow job which I think should work, and is failing after 1.5 hrs with what looks like network errors. It works fine when run against a subset of the data.
The first trouble sign is a whole string of warnings like this:
Refusing to split <dataflow_worker.shuffle.GroupedShuffleRangeTracker object at 0x7f2bcb629950> at b'\xa4r\xa6\x85\x00\x01': proposed split position is out of range [b'\xa4^E\xd2\x00\x01', b'\xa4r\xa6\x85\x00\x01'). Position of last group processed was b'\xa4r\xa6\x84\x00\x01'.
Then there are four errors which seem to be about writing CSV files to GCS:
Error in _start_upload while inserting file gs://(redacted).csv: Traceback (most recent call last): File "/usr/local/lib/python3.7/site-packages/apache_beam/io/gcp/gcsio.py", line 565, in _start_upload self._client.objects.Insert(self._insert_request, upload=self._upload) File "/usr/local/lib/python3.7/site-packages/apache_beam/io/gcp/internal/clients/storage/storage_v1_client.py", line 1156, in Insert upload=upload, upload_config=upload_config) File "/usr/local/lib/python3.7/site-packages/apitools/base/py/base_api.py", line 731, in _RunMethod return self.ProcessHttpResponse(method_config, http_response, request) File "/usr/local/lib/python3.7/site-packages/apitools/base/py/base_api.py", line 737, in ProcessHttpResponse self.__ProcessHttpResponse(method_config, http_response, request)) File "/usr/local/lib/python3.7/site-packages/apitools/base/py/base_api.py", line 604, in __ProcessHttpResponse http_response, method_config=method_config, request=request) apitools.base.py.exceptions.HttpError: HttpError accessing <https://www.googleapis.com/resumable/upload/storage/v1/b/(redacted).csv&uploadType=resumable&upload_id=(redacted)>: response: <{'content-type': 'text/plain; charset=utf-8', 'x-guploader-uploadid': '(redacted)', 'content-length': '0', 'date': 'Wed, 08 Jul 2020 22:17:28 GMT', 'server': 'UploadServer', 'status': '503'}>, content <>
Error in _start_upload while inserting file gs://(redacted).csv: Traceback (most recent call last): File "/usr/local/lib/python3.7/site-packages/apache_beam/io/gcp/gcsio.py", line 565, in _start_upload self._client.objects.Insert(self._insert_request, upload=self._upload) File "/usr/local/lib/python3.7/site-packages/apache_beam/io/gcp/internal/clients/storage/storage_v1_client.py", line 1156, in Insert upload=upload, upload_config=upload_config) File "/usr/local/lib/python3.7/site-packages/apitools/base/py/base_api.py", line 715, in _RunMethod http_request, client=self.client) File "/usr/local/lib/python3.7/site-packages/apitools/base/py/transfer.py", line 908, in InitializeUpload return self.StreamInChunks() File "/usr/local/lib/python3.7/site-packages/apitools/base/py/transfer.py", line 1020, in StreamInChunks additional_headers=additional_headers) File "/usr/local/lib/python3.7/site-packages/apitools/base/py/transfer.py", line 971, in __StreamMedia self.RefreshResumableUploadState() File "/usr/local/lib/python3.7/site-packages/apitools/base/py/transfer.py", line 873, in RefreshResumableUploadState self.stream.seek(self.progress) File "/usr/local/lib/python3.7/site-packages/apache_beam/io/filesystemio.py", line 301, in seek offset, whence, self.position, self.last_block_position)) NotImplementedError: offset: 0, whence: 0, position: 411, last: 411
The Dataflow job ID is 2020-07-07_13_08_31-7649894576933400587 -- if anyone from Google Cloud Support is able to look at this I'd be very grateful. Thanks very much.
P.S I asked a similar question last year (Dataflow job fails at BigQuery write with backend errors), the resolution was to use --experiments=use_beam_bq_sink -- I am already doing this.
You can safely ignore "Refusing to split" errors. This just means that the split position Dataflow service provided probably was received by the worker after that position was already read by the worker. Hence the worker has to ignore the split request.
Error "Error in _start_upload while inserting" seems more problematic and seems to be similar to https://issues.apache.org/jira/browse/BEAM-7014. I suspect this to be a rare flake though so I'm not sure if this was the reason for your job failure (the job only fails of the same workitem failed four times).
Can you contact Google Cloud support so that they can look into your job ?
I will mention this in the JIRA.

Is OpenCV running two instances of SIFT detectAndCompute concurrently?

I can get SIFT keypoints and descriptors from two, seperate, large images (~2GB) when I run sift.detectAndCompute from the command line. I run it on one image, wait a very long time, but eventually get the keypoints and descriptors. Then I repeat for the second image, and again it takes a long time, but I DO eventually get my keypoints and descriptors. Here are the two lines I run from the IPython console in Spyder, which I am running on my machine with 32 GB of RAM. (MAX_MATCHES = 50000 in the code below):
sift = cv2.xfeatures2d.SIFT_create(MAX_MATCHES)
keypoints, descriptors = sift.detectAndCompute(imgGray, None)
This takes 10 minutes to finish, but it does finish. Next, I run this:
keypoints2, descriptors2 = sift.detectAndCompute(refimgGray, None)
When done, keypoints and keypoints2 DO contain 50000 keypoint objects.
However, if I run my script, which calls a function that uses sift.detectAndCompute and returns keypoints and descriptors, the process takes a long time, uses 100% of my memory and ~95% of my disk BW and then fails with this traceback:
runfile('C:/AV GIS/python scripts/img_align_w_geo_w_mask_refactor_ret_1.py', wdir='C:/AV GIS/python scripts')
Reading reference image : C:\Users\kellett\Downloads\3074_transparent_mosaic_group1.tif
xfrm for image = (584505.1165100001, 0.027370000000000002, 0.0, 4559649.608440001, 0.0, -0.027370000000000002)
Reading image to align : C:\Users\kellett\Downloads\3071_transparent_mosaic_group1.tif
xfrm for image = (584499.92168, 0.02791, 0.0, 4559648.80372, 0.0, -0.02791)
Traceback (most recent call last):
File "<ipython-input-75-571660ddab7f>", line 1, in <module>
runfile('C:/AV GIS/python scripts/img_align_w_geo_w_mask_refactor_ret_1.py', wdir='C:/AV GIS/python scripts')
File "C:\Users\kellett\AppData\Local\Continuum\anaconda3\envs\testgdal\lib\site-packages\spyder_kernels\customize\spydercustomize.py", line 668, in runfile
execfile(filename, namespace)
File "C:\Users\kellett\AppData\Local\Continuum\anaconda3\envs\testgdal\lib\site-packages\spyder_kernels\customize\spydercustomize.py", line 108, in execfile
exec(compile(f.read(), filename, 'exec'), namespace)
File "C:/AV GIS/python scripts/img_align_w_geo_w_mask_refactor_ret_1.py", line 445, in <module>
matches = find_matches(refKP, refDesc, imgKP, imgDesc)
File "C:/AV GIS/python scripts/img_align_w_geo_w_mask_refactor_ret_1.py", line 301, in find_matches
matches = matcher.match(dsc1, dsc2)
error: C:\ci\opencv_1512688052760\work\modules\core\src\stat.cpp:4024: error: (-215) (type == 0 && dtype == 4) || dtype == 5 in function cv::batchDistance
The function is simply called once for each image thusly:
print("Reading image to align : ", imFilename);
img, imgGray, imgEdgmask, imgXfrm, imgGeoInfo = read_ortho4align(imFilename)
refKP, refDesc = extractKeypoints(refimgGray, refEdgmask)
imgKP, imgDesc = extractKeypoints(imgGray, imgEdgmask)
HERE IS MY QUESTION (sorry for shouting): Do you think Python tries to run the two lines above concurrently in some way? If so, how can I force it to run serially? If not, do you have any idea why the two keypoint detections would work individually, but not when they come one after another in a script?
One more clue - I put in a statement to see if the script proceeds to the second detectAndCompute statement before it fails, and it does. (I just put a print statement in between the two.)
My error was coming later in my script where I was finding matches.
I have no reason to believe the two SIFT keypoint finding processes are occurring at the same time.
I downsampled the images I was searching for SIFT keypoints and was able to iterate my troubleshooting more quickly and found my error.
I will look at my error more closely next time before asking a question.

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