diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml index 50cb25320d244051303e14ed79c78f9e3d657c90..1246c9a998fe8ddd847549072bb7fe9976e3f720 100644 --- a/.gitlab-ci.yml +++ b/.gitlab-ci.yml @@ -1,11 +1,19 @@ stages: - - build - - test - - release - - documentation + - build-test + - test-baseline -build: - stage: build +test-abstract-cli: + stage: build-test + image: python:3.5-stretch + + script: + - python3 -m pip install -r ./requirements.txt + - python3 -m pip install -e . + - actev -h + - python3 -m unittest discover -s test/ + +test-baseline: + stage: test-baseline image: python:3.5-stretch script: @@ -13,3 +21,5 @@ build: - python3 -m pip install -e . - actev -h - actev validate-system + only: + - /^baseline/ diff --git a/.gitlab/issue_templates/Bug.md b/.gitlab/issue_templates/Bug.md new file mode 100644 index 0000000000000000000000000000000000000000..828ba84e04dfe18aae2e940a36eb4c1ff267dada --- /dev/null +++ b/.gitlab/issue_templates/Bug.md @@ -0,0 +1,42 @@ +## Summary + +(Summarize the bug encountered concisely) + + +## Steps to reproduce + +(How one can reproduce the issue - this is very important) + + +## Example Project + +(If possible, please create an example project here on GitLab.com that exhibits the problematic behaviour, and link to it here in the bug report) + +(If you are using an older version of GitLab, this will also determine whether the bug has been fixed in a more recent version) + + +## What is the current bug behavior? + +(What actually happens) + + +## What is the expected correct behavior? + +(What you should see instead) + + +## Relevant logs and/or screenshots + +(Paste any relevant logs - please use code blocks (```) to format console output, +logs, and code as it's very hard to read otherwise.) + + +## Possible fixes + +(If you can, link to the line of code that might be responsible for the problem) + + +(Don't forget to add a priority label and other relevant labels.) + +/label ~Bug + diff --git a/.gitlab/merge_request_templates/Default.md b/.gitlab/merge_request_templates/Default.md new file mode 100644 index 0000000000000000000000000000000000000000..3303a489d2db3edf15831ce02aba7b83250db3ca --- /dev/null +++ b/.gitlab/merge_request_templates/Default.md @@ -0,0 +1,45 @@ +- [ ] Includes a summary of the purpose of the MR and commits +- [ ] Link to any issues that this MR addresses +- [ ] Includes tests +- [ ] (if needed) documentation was updated +- [ ] Passes CI +- [ ] [When ready for code review] Added label `Review` (to both issue and MR) +- [ ] Code reviewer assigned to merge request +- [ ] Issue label changed from `Review` to `Ready` when MR is accepted by code reviewer. + +# Instructions + +### Developer + +1. Open a MR at any time when working on an issue. The source branch should be your issue branch (naming irrelevant) and `develop`. +1. Make sure to include the label `Doing` on *both* the issue and MR. +2. Address the issue and make sure: + * your code is readable and maintainable + * your code includes tests + * you updated any relevant documentation + * your code passes the CI (automatic, look for :white_check_mark:) + * you included a summary of your changes for the code Reviewer + * you updated the progress in the MR checklist +3. Change the `Doing` label in `Review` on the Issue and MR (Issue labels and MR labels are separate!!!) +3. Assign a code reviewer +3. (if the code reviewer asks) Start back at 2., make changes and send back to review + + +### Reviewer + +Your role is to be a second set of eyes to check that everything as it should be. +This is also an opportunity to share insights on code readability, brevity, etc. + +The code review is not an evaluation. + +1. Check that : + * you understand what this issue addresses + * the CI pipeline passes + * tests are present in the MR + * the code is readable and you can follow the reasoning + * any documentation was updated to reflect the changes +2. When appropriate, suggest actionable changes using the MR comments or the line-in-code comments +3. Asking for clarification is also O.K. +4. When you feel like the MR is ready, use the "Merge" button with the "delete issue branch" option (or delete the branch separately) +5. Change the Issue label from `Review` to `Ready` + diff --git a/CHANGELOG.md b/CHANGELOG.md index 525c38e677e2be7f7b92aa764e892be6e529fd15..a6474313b4244823b2120217097b9b3a235a4023 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,3 +1,11 @@ +1.2.0 - 07.01.19 +================ +* Update validate-execution command with a `--score` flag https://gitlab.kitware.com/actev/diva_evaluation_cli/issues/11 +* Update validate-system command, and add a `--strict` flag https://gitlab.kitware.com/actev/diva_evaluation_cli/issues/12 +* Improved documentation for each command +* New _free disk_ metric in resources monitoring +* Bug fixes + 1.1.9 - 05.23.19 ================ diff --git a/README.md b/README.md index 3a602c04341aff054362eb6271cda26e50028e9e..7a923c25e6fcab92d990727e838bd061e14fb4c0 100644 --- a/README.md +++ b/README.md @@ -19,7 +19,7 @@ Get the CLI Clone the repository: ``` -git clone https://gitlab.kitware.com/alexandreB/diva_evaluation_cli.git +git clone https://gitlab.kitware.com/actev/diva_evaluation_cli.git ``` Install it @@ -76,7 +76,7 @@ Fork it Click on the “Fork” button to make a copy of the repository in your own space and add this repository as a remote upstream to get the latest updates ``` -$ git remote add upstream https://gitlab.kitware.com/alexandreB/diva_evaluation_cli.git +$ git remote add upstream https://gitlab.kitware.com/actev/diva_evaluation_cli.git ``` Update it @@ -102,5 +102,4 @@ More information about the development and the update of the CLI here: [developm Contact ======= -* alexandre.boyer@nist.gov -* maxime.hubert@nist.gov +* diva-nist@nist.gov diff --git a/diva_evaluation_cli/__init__.py b/diva_evaluation_cli/__init__.py index 86ee767f7eabf0b2db15c3336aa3f7fc034abd95..58d478ab160be0a838dab2d6ce9a15ce6d80b07b 100644 --- a/diva_evaluation_cli/__init__.py +++ b/diva_evaluation_cli/__init__.py @@ -1 +1 @@ -__version__ = '1.1.9' +__version__ = '1.2.0' diff --git a/diva_evaluation_cli/bin/commands/actev_validate_execution.py b/diva_evaluation_cli/bin/commands/actev_validate_execution.py index 829f59382af95005374ae3abc9fae845aa51ebd3..be7fa3c0a76cdb01af067babecd85a5e5b6a8acf 100644 --- a/diva_evaluation_cli/bin/commands/actev_validate_execution.py +++ b/diva_evaluation_cli/bin/commands/actev_validate_execution.py @@ -23,6 +23,7 @@ class ActevValidateExecution(ActevCommand): * file-index or f: path to file index json file for test set * activity-index or a: path to activity index json file for test set * result or -R: path to result of the ActEV scorer + * score or -s: sets flag to score system """ def __init__(self): @@ -39,9 +40,10 @@ class ActevValidateExecution(ActevCommand): required_named = arg_parser.add_argument_group('required named arguments') required_named.add_argument("-o", "--output", help="path to experiment output json file", required=True) - required_named.add_argument("-r", "--reference", help="path to reference json file", required=True) + required_named.add_argument("-r", "--reference", help="path to reference json file", required=False) required_named.add_argument("-a", "--activity-index", help="path to activity index json file", required=True) required_named.add_argument("-f", "--file-index", help="path to file index json file", required=True) - required_named.add_argument("-R", "--result", help="path to result of the ActEV scorer", required=True) + required_named.add_argument("-R", "--result", help="path to result of the ActEV scorer", required=False) + required_named.add_argument("-s", "--score", help="sets flag to score system", required=False, action='store_true') arg_parser.set_defaults(func=ActevValidateExecution.command, object=self) diff --git a/diva_evaluation_cli/bin/commands/actev_validate_system.py b/diva_evaluation_cli/bin/commands/actev_validate_system.py index e70875128d08983a3c3dce73e58b1790a84090ca..c244cd82404159ab8d723ceac41cf404b1b558bc 100644 --- a/diva_evaluation_cli/bin/commands/actev_validate_system.py +++ b/diva_evaluation_cli/bin/commands/actev_validate_system.py @@ -26,5 +26,8 @@ class ActevValidateSystem(ActevCommand): arg_parser(:obj:`ArgParser`): Python arg parser to describe how to parse the command """ - arg_parser.description = "Checks the structure of the directory after ActEV-system-setup is run" + arg_parser.description = """Checks the structure of the directory after ActEV-system-setup is run. + Also, checks for self-reported system outputs.""" + + arg_parser.add_argument("--strict", help="Exits with an error in case of an invalid system.", action="store_true", default=False) arg_parser.set_defaults(func=ActevValidateSystem.command, object=self) diff --git a/diva_evaluation_cli/bin/private_src/entry_points/actev_validate_execution.py b/diva_evaluation_cli/bin/private_src/entry_points/actev_validate_execution.py index 451bfd8d6cb95639ee1dce5ca4e3d262c69ba66e..87ec1b95ad21c22b9898be30e405fb57829faabf 100644 --- a/diva_evaluation_cli/bin/private_src/entry_points/actev_validate_execution.py +++ b/diva_evaluation_cli/bin/private_src/entry_points/actev_validate_execution.py @@ -4,7 +4,7 @@ This file should not be modified. """ import os -def entry_point(output, reference, activity_index, file_index, result): +def entry_point(output, reference, activity_index, file_index, result, score): """Private entry point. Test the execution of the system on each validation data set provided in container_output directory @@ -20,14 +20,18 @@ def entry_point(output, reference, activity_index, file_index, result): # go into the right directory to execute the script path = os.path.dirname(__file__) execution_validation_dir = os.path.join(path, '../implementation/validate_execution') - + if score: + s = "true" + else: + s = "false" installation_script = os.path.join(execution_validation_dir, 'install.sh') script = os.path.join(execution_validation_dir, 'score.sh') script += " " + output + \ " " + reference + \ " " + activity_index + \ " " + file_index + \ - " " + result + " " + result + \ + " " + s # execute the script # status is the exit status code returned by the program diff --git a/diva_evaluation_cli/bin/private_src/entry_points/actev_validate_system.py b/diva_evaluation_cli/bin/private_src/entry_points/actev_validate_system.py index 5a4594fce4a661a38aac793ad350042fa038311a..52bc812ed5a65dd416e95b2b0cfda5399c93f325 100644 --- a/diva_evaluation_cli/bin/private_src/entry_points/actev_validate_system.py +++ b/diva_evaluation_cli/bin/private_src/entry_points/actev_validate_system.py @@ -5,11 +5,16 @@ This file should not be modified. import os from diva_evaluation_cli.bin.private_src.implementation.validate_system.validate_system import validate_system -def entry_point(): +def entry_point(strict): """Private entry point. + Test the execution of the system on each validation data set provided in container_output directory + + Args: + strict (bool): Whether to cause a failure in case of an error or not + Checks the structure of the directory after ActEV-system-setup is run. Checks for expected API contents, etc. """ - validate_system() + validate_system(strict) diff --git a/diva_evaluation_cli/bin/private_src/implementation/get_system/get/get_archive.sh b/diva_evaluation_cli/bin/private_src/implementation/get_system/get/get_archive.sh index 0f261ac360ff1f4d9838bb1d814b670f26e1d5a5..8f11c6e6f8724e6d622d70b766ee19ae92f72d69 100755 --- a/diva_evaluation_cli/bin/private_src/implementation/get_system/get/get_archive.sh +++ b/diva_evaluation_cli/bin/private_src/implementation/get_system/get/get_archive.sh @@ -44,6 +44,6 @@ if [ $name != "" ] && [ $name != $package ]; then fi cd .. -mv $archive_dir/* . -rm -r $archive_dir +mv -f $archive_dir/* . +rm -rf $archive_dir diff --git a/diva_evaluation_cli/bin/private_src/implementation/resources_monitoring/utils.py b/diva_evaluation_cli/bin/private_src/implementation/resources_monitoring/utils.py index a607435b111fca8c74101bf736d3c78cfda80578..1f544fa0abaf1ae5ad8b9240bc43972153aef096 100644 --- a/diva_evaluation_cli/bin/private_src/implementation/resources_monitoring/utils.py +++ b/diva_evaluation_cli/bin/private_src/implementation/resources_monitoring/utils.py @@ -22,7 +22,11 @@ def psutil_snapshot(): ), 'total_disk_io_write': psutil_parse_readable_bytes( psutil.disk_io_counters(perdisk=False, nowrap=True).write_bytes - ) + ), + 'free_disk_space': { + disk[1]: psutil_parse_readable_bytes(psutil.disk_usage(disk[1])[2]) + for disk in psutil.disk_partitions() + } } return snapshot_dict diff --git a/diva_evaluation_cli/bin/private_src/implementation/validate_execution/score.sh b/diva_evaluation_cli/bin/private_src/implementation/validate_execution/score.sh index 8cbe3d13d029a92a6aebd8dd185d19970094eb41..0d4ff2d738b6d592c883c8e8c55d91c2e47f5b2b 100755 --- a/diva_evaluation_cli/bin/private_src/implementation/validate_execution/score.sh +++ b/diva_evaluation_cli/bin/private_src/implementation/validate_execution/score.sh @@ -14,15 +14,24 @@ reference=$2 activity=$3 file=$4 result=$5 - +score=$6 # Execute ActEV Scorer cd ActEV_Scorer - -python2 ActEV_Scorer.py \ - ActEV18_AD \ - -s $output \ - -r $reference \ - -a $activity \ - -f $file \ - -o $result \ - -v +if [ $score == "true" ] ; then + python2 ActEV_Scorer.py \ + ActEV18_AD \ + -s $output \ + -r $reference \ + -a $activity \ + -f $file \ + -o $result \ + -v +else + python2 ActEV_Scorer.py \ + ActEV18_AD \ + -s $output \ + -a $activity \ + -f $file \ + -v \ + -V +fi diff --git a/diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_activity.json b/diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_activity.json similarity index 100% rename from diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_activity.json rename to diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_activity.json diff --git a/diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_chunk.json b/diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_chunk.json similarity index 99% rename from diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_chunk.json rename to diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_chunk.json index a590f3a0d4e0a250033f923813441703d08a6d63..0cfa375083bf4dd6626fdfb6b7ea1dcecfbfaa06 100644 --- a/diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_chunk.json +++ b/diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_chunk.json @@ -27,4 +27,4 @@ "VIRAT_S_040100_03_000496_000559.mp4" ] } -} \ No newline at end of file +} diff --git a/diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_file.json b/diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_file.json similarity index 89% rename from diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_file.json rename to diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_file.json index f18ea6c30b9810ee5019d5edf456045dc58b6d80..df7a0c29b598ea04df10ec3793e8dac1396284ee 100644 --- a/diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_file.json +++ b/diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_file.json @@ -20,7 +20,7 @@ "1884": 0 } }, - "2018-03-14.07-30-04.07-35-04.G336.avi": { + "2018-03-14.07-30-04.07-35-04.school.G336.avi": { "framerate": 30.0, "selected": { "1": 1, diff --git a/diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_output.json b/diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_output.json similarity index 100% rename from diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_output.json rename to diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set1/ActEV-Eval-CLI-Validation-Set1_output.json diff --git a/diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_activity.json b/diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_activity.json similarity index 100% rename from diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_activity.json rename to diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_activity.json diff --git a/diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_chunk.json b/diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_chunk.json similarity index 99% rename from diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_chunk.json rename to diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_chunk.json index 7a790c6fbbe6460266bbfae9f000b84151a7a885..2d5bc496a13f6ff5cb6d5befb00fa3ae90ba84ff 100644 --- a/diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_chunk.json +++ b/diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_chunk.json @@ -52,4 +52,4 @@ "Unloading" ] } -} \ No newline at end of file +} diff --git a/diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_file.json b/diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_file.json similarity index 100% rename from diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_file.json rename to diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_file.json diff --git a/diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_output.json b/diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_output.json similarity index 100% rename from diva_evaluation_cli/container_output/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_output.json rename to diva_evaluation_cli/bin/private_src/implementation/validate_system/baseline_outputs/ActEV-Eval-CLI-Validation-Set2/ActEV-Eval-CLI-Validation-Set2_output.json diff --git a/diva_evaluation_cli/bin/private_src/implementation/validate_system/expected_container_output.txt b/diva_evaluation_cli/bin/private_src/implementation/validate_system/expected_container_output.txt index d7ba3c5823ba536b2e1a432d4784aece237eb041..04a64f7cda040017fd966c6f02cd91037722afbd 100644 --- a/diva_evaluation_cli/bin/private_src/implementation/validate_system/expected_container_output.txt +++ b/diva_evaluation_cli/bin/private_src/implementation/validate_system/expected_container_output.txt @@ -1,4 +1,4 @@ -file.json -activity.json -output.json -chunk.json +_activity.json +_chunk.json +_file.json +_output.json diff --git a/diva_evaluation_cli/bin/private_src/implementation/validate_system/validate_system.py b/diva_evaluation_cli/bin/private_src/implementation/validate_system/validate_system.py index 5b6bbac8cc22a1c6ab7a0a4a3ec96b315f297dad..2f0bde5af5e703d09594f5df24e9833e6b40c61b 100644 --- a/diva_evaluation_cli/bin/private_src/implementation/validate_system/validate_system.py +++ b/diva_evaluation_cli/bin/private_src/implementation/validate_system/validate_system.py @@ -8,21 +8,39 @@ import logging import os import sys import glob +import filecmp root_path = os.path.join(os.path.dirname(os.path.abspath(__file__)), '../../../../') -def validate_system(): +def handle_error(msg, strict): + """Error handler + msg (str): An error message to display as a warning or as an Exception + strict (bool): Whether to throw an exception with the provided message + """ + if strict: + raise Exception('System validation failed: {}'.format(msg)) + logging.warning('{}'.format(msg)) + + +def validate_system(strict): """Main validation method + strict (bool): Whether to cause a failure in case of an error or not + """ - validate_structure() - validate_cli() - validate_container_output() - logging.info("System is valid") + validate_structure(strict) + validate_cli(strict) + validate_container_output(strict) + if strict: + logging.info("System is valid") + else: + logging.warning("System validation not performed yet. Fix any WARNING and validate again using the --strict flag") ############################### structure ##################################### -def validate_structure(): +def validate_structure(strict): """Validate structure of the CLI: should contain required directories. + strict (bool): Whether to cause a failure in case of an error or not + """ directories = os.listdir(root_path) content = import_expected_result('expected_structure.txt') @@ -30,15 +48,18 @@ def validate_structure(): for directory in content: if not directory in directories: - raise Exception("System validation failed, missing {} directory".format(directory)) + handle_error("missing {} directory".format(directory), strict) if not os.path.isdir(root_path + '/' + directory): - raise Exception("System validation failed, {} not a directory".format(directory)) + handle_error("{} not a directory".format(directory), strict) logging.info(" .. {} is valid".format(directory)) + ################################## cli ######################################## -def validate_cli(): +def validate_cli(strict): """ Import the entry points method and try to compare them with the expected result + strict (bool): Whether to cause a failure in case of an error or not + """ from diva_evaluation_cli.bin.cli import public_subcommands @@ -54,17 +75,18 @@ def validate_cli(): try: entry_point_module = importlib.import_module('diva_evaluation_cli.src.entry_points.{}'.format(actev_command)) except: - raise Exception("System validation failed, {} entry_point method removed".format(actev_command)) + handle_error("{} entry_point method removed".format(actev_command), strict) entry_point_function = getattr(entry_point_module, 'entry_point') result = "{} - {}".format(actev_command,inspect.signature(entry_point_function)) # Is entry point contain correct arguments if content[i] != result: - raise Exception("System validation failed, {} entry_point method changed".format(actev_command)) + handle_error(("{} entry_point method changed: {} != {}".format(actev_command, content[i], result)), strict) i += 1 logging.info(" .. {} is valid".format(actev_command)) + def import_expected_result(file_name): """ Import expected validation result @@ -82,21 +104,77 @@ def import_expected_result(file_name): ############################# container output ################################ -def validate_container_output(): +def dataset_name_from_dirname(dirname, dataset_names): + """Get the dataset name from the dirname + """ + for dataset_name in dataset_names: + if dirname.startswith(dataset_name): + return dataset_name + return None + +def get_dataset_name_matching_dirname(dirname, dataset_names, strict): + """Get the dataset name and check its format, and whether it exists + """ + if not dirname: + handle_error('system output format should be in the following format:_*', strict) + + matching_dataset_names = [dataset_name for dataset_name in dataset_names if dirname.startswith(dataset_name + '_')] + + if not matching_dataset_names: + return False + + # Return the longest dataset name matched, in case some names are composed of others + matching_dataset_names.sort(key=len, reverse=True) + + return matching_dataset_names[0] + +def validate_container_output(strict): """ Check that container output directory is present. - For each datasetID directory, chunks, activity, file and output should be present too. + For each subdirectory, an *output.json file should be present. + strict (bool): Whether to cause a failure in case of an error or not + """ - container_output_dir = os.path.join(root_path, 'container_output') + container_output_dir = os.path.normpath(os.path.join(root_path, 'container_output')) logging.info("Container output validation") - for dataset_id in os.listdir(container_output_dir): - dataset_id_path = os.path.join(container_output_dir, dataset_id) - if os.path.isdir(dataset_id_path): - content = import_expected_result('expected_container_output.txt') - for file_name in content: - dataset_filename = '*' + file_name - files = os.path.join(dataset_id_path, dataset_filename) - if not glob.glob(files): - raise Exception("System validation failed, {} not present in {}".format(dataset_filename, dataset_id)) - logging.info(" .. {} is valid".format(dataset_id)) + # Gather all system outputs paths + system_outputs_paths = [ dirname for dirname in os.listdir(container_output_dir) if os.path.isdir(os.path.join(container_output_dir, dirname)) ] + + # Get the datasets names + baseline_results_path = os.path.join(os.path.dirname(__file__), 'baseline_outputs') + dataset_names = [ path for path in os.listdir(baseline_results_path) if os.path.isdir(os.path.join(baseline_results_path, path)) and path ] + + # Check whether the container-outputs dir is empty + if not system_outputs_paths: + handle_error('no system output in {}'.format(container_output_dir), strict) + + for system_output_dir_path in system_outputs_paths: + + system_output_name = os.path.basename(system_output_dir_path) + logging.info('Checking system output {}'.format(system_output_dir_path)) + + # 1st check: check that the system output name matches one of the partitions + dataset_name = get_dataset_name_matching_dirname(system_output_name, dataset_names, strict) + if dataset_name: + + # 2nd check: check that all expected files are present + expected_files = import_expected_result('expected_container_output.txt') + for expected_file in expected_files: + dataset_filename = dataset_name + expected_file + dataset_filepath = os.path.join(container_output_dir, system_output_name, dataset_filename) + if not os.path.exists(dataset_filepath): + handle_error("Cannot find file {}".format(dataset_filepath), strict) + + + # 3rd check: check whether the output is identical to the baseline output + dataset_name = dataset_name_from_dirname(system_output_name, dataset_names) + baseline_result_path = os.path.join(baseline_results_path, dataset_name, dataset_name + '_output.json') + system_output_path_glob = os.path.join(container_output_dir, system_output_name, '*output.json') + system_output_path = glob.glob(system_output_path_glob) + if system_output_path: + if filecmp.cmp(baseline_result_path, system_output_path[0]): + handle_error('container output file {} is identical to the baseline output on the same dataset.'.format(system_output_name, dataset_names), strict) + + else: + handle_error('bad directory name "{}", it has to be _* with dataset_name one of {}'.format(system_output_name, dataset_names), strict) diff --git a/diva_evaluation_cli/container_output/README.md b/diva_evaluation_cli/container_output/README.md new file mode 100644 index 0000000000000000000000000000000000000000..b2d898a21755f82c3d2f05eb7d8fc854b2f2784e --- /dev/null +++ b/diva_evaluation_cli/container_output/README.md @@ -0,0 +1,19 @@ +## Self-reported system output + +Please use this folder to report your personal system outputs. +Create a subdirectory using the following pattern for its name: + +``` +_*/ +``` + + +This subdirectory may then contain your system output using the following structure: + +``` +_*/ + _activity.json Activity index you used in this dataset + _file.json File index you used in this dataset + _chunk.json Output of the command design-chunks you ran on this dataset + _output.json Output of the command merge-chunks you ran on this dataset +``` diff --git a/doc/cli_commands/actev_exec.md b/doc/cli_commands/actev_exec.md index 45719014d5aa16c32abb4608510a71e05bb4034b..9ffb87aa616c63ce3677f949102f634f2d568f6d 100644 --- a/doc/cli_commands/actev_exec.md +++ b/doc/cli_commands/actev_exec.md @@ -2,9 +2,17 @@ ## Description -Calls a team-implemented API. Captures time stamps, resource usage, etc. +Calls in sequence the following CLI commands: -The command contains the following subcommands: + * experiment_init + * for each chunk, + * pre_process_chunk + * process_chunk + * post_process_chunk + * merge_chunks + * experiment_cleanup + +This command requires the following parameters: ## Parameters diff --git a/doc/cli_commands/actev_experiment_cleanup.md b/doc/cli_commands/actev_experiment_cleanup.md index 3da06aaefb1d6211f55b921ca2879db5c5490e57..c9ba5d2ed7b8a6713928b380730eae7341aad085 100644 --- a/doc/cli_commands/actev_experiment_cleanup.md +++ b/doc/cli_commands/actev_experiment_cleanup.md @@ -2,9 +2,9 @@ ## Description -Close any servers, terminates cluster (future functionality), etc. +Command that deletes any artifact produced by the previous execution of the system: cache files, output files, instances of containers... -The command contains the following subcommands: +This command requires the following parameters: ## Parameters diff --git a/doc/cli_commands/actev_experiment_init.md b/doc/cli_commands/actev_experiment_init.md index 62653e0fdf32565afc5c388efc799107ce44d879..39026d3fedc82e2c45a8d13a53c5831dd76fcc43 100644 --- a/doc/cli_commands/actev_experiment_init.md +++ b/doc/cli_commands/actev_experiment_init.md @@ -2,9 +2,9 @@ ## Description -Start servers, starts cluster, etc. +Performs any operation that prepares the execution of the system such as booting containers, etc... -The command contains the following subcommands: +This command requires the following parameters: ## Parameters diff --git a/doc/cli_commands/actev_get_system.md b/doc/cli_commands/actev_get_system.md index e28eb9f2ae6c0ec7e0bad922d08e2c62f70c248e..ceda77019d105d6b80ac319d5e786339aed0f1e9 100644 --- a/doc/cli_commands/actev_get_system.md +++ b/doc/cli_commands/actev_get_system.md @@ -62,45 +62,11 @@ actev get-system git -u ... -l -n -``` - -With username and password: - -``` -actev get-system docker -u -U -p -``` - -:warning: if your password starts with *-* as in this example: `-9r45ijFo0`, you should write `--password=-9r45ijFo0` instead of `-p -9r45ijFo0`. Otherwise, the value will be interpreted as an argument to parse. - -Example: - -``` -actev get-system docker -u gitlab.kitware.com:4567/diva-baseline/diva-baseline:eval_cli -``` +## get-system archive -## get-system other ### Description Downloads a web resources as a zip/tar file @@ -120,25 +86,25 @@ Downloads a web resources as a zip/tar file Generic command: ``` -actev get-system other -u +actev get-system archive -u ``` With username and password: ``` -actev get-system other -u -U -p +actev get-system archive -u -U -p ``` With a token: ``` -actev get-system git -u -t +actev get-system archive -u -t ``` Store the system in a specific directory: ``` -actev get-system git -u ... -l +actev get-system archive -u ... -l ``` :information_source: You can also directly add your credentials inside the url. @@ -149,5 +115,5 @@ actev get-system git -u ... -l Example: ``` -actev get-system other -u https://path/to/file.tgz -l /tmp +actev get-system archive -u https://path/to/file.tgz -l /tmp ``` diff --git a/doc/cli_commands/actev_merge_chunks.md b/doc/cli_commands/actev_merge_chunks.md index 0fd200dc2e95dd8d080ae3345459c4083060385c..713a042954db4bcb7e453bae4c1d421f15c9db22 100644 --- a/doc/cli_commands/actev_merge_chunks.md +++ b/doc/cli_commands/actev_merge_chunks.md @@ -4,7 +4,7 @@ Given a list of chunk ids, merges all the chunks system output present in the list. -The command contains the following subcommands: +This command requires the following parameters: ## Parameters @@ -26,5 +26,5 @@ actev merge-chunks -o -c -r Example: ``` -actev validate-execution ~/output.json -r diva_evaluation_cli/container_output/dataset/output.json -a ~/activity.json -f ~/file.json -R ~/result.json +actev validate-execution ~/output.json -r diva_evaluation_cli/container_output/dataset/output.json -a ~/activity.json -f ~/file.json -R ~/result.json --score + ``` diff --git a/doc/cli_commands/actev_validate_system.md b/doc/cli_commands/actev_validate_system.md index fd4ef302e23ed2aee19611e1ea0ab8dde6af9621..6b7eaab5505f931d186b88cf6ab45b44b640d6c1 100644 --- a/doc/cli_commands/actev_validate_system.md +++ b/doc/cli_commands/actev_validate_system.md @@ -2,9 +2,28 @@ ## Description -Checks the structure of the directory after ActEV-system-setup is run. Checks for expected API contents, etc. +Checks the structure of the directory after ActEV-system-setup is run. Checks for global directory structure, expected API contents, and system outputs directory and integrity. +The `--strict` flag causes the command to throw an exception on an error. Otherwise only WARNING logs are displayed. -The command contains the following subcommands: +In order to succed: + * The repository contains the required sub-directories, + * The signatures of the .src.** functions have to remain unchanged, + * The container_outputs directory contains at least one system output, + * Each reported system output is different from the baseline's, + * Names of the directories inside `container_outputs/` follow a strict syntax < dataset_name >\_* + * Each subdirectory contains a set of 4 files: + * < dataset_name >\_activity.json + * < dataset_name >\_chunk.json + * < dataset_name >\_file.json + * < dataset_name >\_output.json + +This command requires the following parameters: + +## Parameters + +| Name | Id | Required | Definition | +|-----------|------------|---------|----------------------------| +| strict | --strict | False | Whether to throw an exception on an error. | ## Usage @@ -12,3 +31,8 @@ The command contains the following subcommands: actev validate-system ``` +Example: + +``` +actev validate-system --strict +``` diff --git a/doc/development.md b/doc/development.md index a295b6d9a1c266c054a5ca3c94d447bcfed20a7a..ed780a4a5fb87edaa1aac8fdad171b0e9d1f2234 100644 --- a/doc/development.md +++ b/doc/development.md @@ -6,7 +6,7 @@ Overview The ActEV Independent Evaluation Command Line Interface (ActEV EvalCLI) defines an abstract interface for command line interaction model that is consistent for all developers while allowing freedom of underlying implementation. Consult [introduction](introduction.md) for a more detailed description of the CLI and how it will be used. -The abstract CLI is contained in the GIT Repo [diva_evaluation_cli](https://gitlab.kitware.com/alexandreB/diva_evaluation_cli). This contains a stubbed-out implementation of the CLI. The Baseline Active Detection System (RC3D) has been adapted to the CLI as an example implementation. It is available in the GIT repo [here](https://gitlab.kitware.com/alexandreB/diva_evaluation_cli/tree/baseline_system_master). +The abstract CLI is contained in the GIT Repo [diva_evaluation_cli](https://gitlab.kitware.com/actev/diva_evaluation_cli). This contains a stubbed-out implementation of the CLI. The Baseline Active Detection System (RC3D) has been adapted to the CLI as an example implementation. It is available in the GIT repo [here](https://gitlab.kitware.com/actev/diva_evaluation_cli/tree/baseline_system_master). The preferred workflow for the participant to implement the CLI is to GIT ‘fork’ the main branch of the abstract CLI and then implement the Entry Points. This can be accomplished two ways: branching within the NIST GIT Repo or using a linked branch from your team’s Repo. Contact NIST if you have questions. diff --git a/test/README.md b/test/README.md new file mode 100644 index 0000000000000000000000000000000000000000..038946f1d75adb22cf3d0620859a062243be4321 --- /dev/null +++ b/test/README.md @@ -0,0 +1,5 @@ +To trigger the execution of the unittests: + +``` +python3 -m unittest discover -s test/ +``` diff --git a/test/test_validate_system.py b/test/test_validate_system.py new file mode 100644 index 0000000000000000000000000000000000000000..443775759fb69f3754e41a639a3b6ebdccee51cd --- /dev/null +++ b/test/test_validate_system.py @@ -0,0 +1,89 @@ +# -*- coding: utf-8 -*- +''' + This module implements unit tests of the submission validation. +''' + +import os, sys, glob +import unittest + +from diva_evaluation_cli.bin.cli import cli_parser + + +class TestValidateSystem(unittest.TestCase): + """ + Test the actev validate-system CLI call, using valid and invalid directories + """ + + def setUp(self): + + current_path = os.path.abspath(__file__) + self.test_dir_path = os.path.dirname(current_path) + + self.test_examples_path = os.path.join(self.test_dir_path, 'validate_system/validate_container_output') + self.system_outputs_dir = os.path.join(self.test_dir_path, '../diva_evaluation_cli/container_output') + self.old_system_outputs_dir = self.system_outputs_dir + '_tmp' + + # Move existing system outputs to perform test + os.renames(self.system_outputs_dir, self.old_system_outputs_dir) + os.makedirs(self.system_outputs_dir) + + valid_test_examples_dirs = os.listdir(os.path.join(self.test_examples_path, 'valid')) + self.valid_test_examples = [os.path.join(self.test_examples_path, 'valid', os.path.basename(subdir)) + for subdir in valid_test_examples_dirs] + + + invalid_test_examples_dirs = os.listdir(os.path.join(self.test_examples_path, 'invalid')) + self.invalid_test_examples = [os.path.join(self.test_examples_path, 'invalid', os.path.basename(subdir)) + for subdir in invalid_test_examples_dirs] + + def tearDown(self): + # Remove all symbolic links + test_examples = self.valid_test_examples + self.invalid_test_examples + + for test_example_dir in test_examples: + link_path = os.path.join(self.system_outputs_dir, os.path.basename(test_example_dir)) + if os.path.islink(link_path): + os.unlink(link_path) + + # Move back previous system outputs + os.renames(self.old_system_outputs_dir, self.system_outputs_dir) + + def test_valid_container_outputs(self): + + assert len(self.valid_test_examples) > 0 + + for test_example_dir in self.valid_test_examples: + new_system_output = os.path.join(self.system_outputs_dir, os.path.basename(test_example_dir)) + print('Linking {} to {}'.format(test_example_dir, new_system_output)) + os.symlink(test_example_dir, new_system_output) + sys.argv[1:] = ['validate-system', '--strict'] + try: + cli_parser() + except Exception: + self.fail("Strict validator failed on valid submission {}".format(test_example_dir)) + + def test_invalid_container_outputs(self): + + assert len(self.invalid_test_examples) > 0 + + for test_example_dir in self.invalid_test_examples: + new_system_output = os.path.join(self.system_outputs_dir, os.path.basename(test_example_dir)) + print('Linking {} to {}'.format(test_example_dir, new_system_output)) + os.symlink(test_example_dir, new_system_output) + + # Test the validator in a strict mode + sys.argv[1:] = ['validate-system', '--strict'] + with self.assertRaises(SystemExit): + cli_parser() + self.fail("Validator succedded on invalid system output {}".format(test_example_dir)) + + # Test the validator in a non strict mode + sys.argv[1:] = ['validate-system'] + try: + cli_parser() + except Exception: + self.fail("Non strict validator produced an error on invalid submission {}".format(test_example_dir)) + + +if __name__ == '__main__': + unittest.main() diff --git a/diva_evaluation_cli/container_output/.keep b/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set1_filename_typo/ActEV-Eval-CLI-Validation-Set1_chunk.json similarity index 100% rename from diva_evaluation_cli/container_output/.keep rename to test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set1_filename_typo/ActEV-Eval-CLI-Validation-Set1_chunk.json diff --git a/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set1_filename_typo/ActEV-Eval-CLI-Validation-Set1_file.json b/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set1_filename_typo/ActEV-Eval-CLI-Validation-Set1_file.json new file mode 100644 index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 diff --git a/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set1_filename_typo/ActEV-Eval-CLI-Validation-Set1_output.json b/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set1_filename_typo/ActEV-Eval-CLI-Validation-Set1_output.json new file mode 100644 index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 diff --git a/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set1_filename_typo/ActEV-Eval-CLI-Validtion-Set1_activity.json b/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set1_filename_typo/ActEV-Eval-CLI-Validtion-Set1_activity.json new file mode 100644 index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 diff --git a/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set2-bad-folder-name/ActEV-Eval-CLI-Validation-Set2_activity.json b/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set2-bad-folder-name/ActEV-Eval-CLI-Validation-Set2_activity.json new file mode 100644 index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 diff --git a/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set2-bad-folder-name/ActEV-Eval-CLI-Validation-Set2_chunk.json b/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set2-bad-folder-name/ActEV-Eval-CLI-Validation-Set2_chunk.json new file mode 100644 index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 diff --git a/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set2-bad-folder-name/ActEV-Eval-CLI-Validation-Set2_file.json b/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set2-bad-folder-name/ActEV-Eval-CLI-Validation-Set2_file.json new file mode 100644 index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391 diff --git a/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set2-bad-folder-name/ActEV-Eval-CLI-Validation-Set2_output.json b/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set2-bad-folder-name/ActEV-Eval-CLI-Validation-Set2_output.json new file mode 100644 index 0000000000000000000000000000000000000000..1ed61a6537228a9e820503ff5320d8b514edcbb4 --- /dev/null +++ b/test/validate_system/validate_container_output/invalid/ActEV-Eval-CLI-Validation-Set2-bad-folder-name/ActEV-Eval-CLI-Validation-Set2_output.json @@ -0,0 +1,7463 @@ +{ + "Activities": [ + { + "activity": "Loading", + "localization": { + "VIRAT_S_040003_02_000197_000552.mp4": { + "5767": 0, + "5715": 1 + } + }, + "activityID": 0, + "presenceConf": 0.1712687760591507, + "alert_frame": 5767 + }, + { + "activity": "Loading", + "localization": { + "VIRAT_S_040003_02_000197_000552.mp4": { + "5856": 0, + "5796": 1 + } + }, + "activityID": 1, + "presenceConf": 0.13744764029979706, + "alert_frame": 5856 + }, + { + "activity": "Loading", + "localization": { + "VIRAT_S_040003_02_000197_000552.mp4": { + "586": 0, + "494": 1 + } + }, + "activityID": 2, + "presenceConf": 0.10774153470993042, + "alert_frame": 586 + }, + { + "activity": "Loading", + "localization": { + "VIRAT_S_040003_02_000197_000552.mp4": { + "5699": 0, + "5645": 1 + } + }, + "activityID": 3, + "presenceConf": 0.08105918020009995, + "alert_frame": 5699 + }, + { + "activity": "activity_carrying", + "localization": { + "VIRAT_S_040003_02_000197_000552.mp4": { + "4680": 1, + "5430": 0 + } + }, + "activityID": 4, + "presenceConf": 0.9913241863250732, + "alert_frame": 5430 + }, + { + "activity": "activity_carrying", + "localization": { + "VIRAT_S_040003_02_000197_000552.mp4": { + "3685": 1, + "5104": 0 + } + }, + "activityID": 5, + "presenceConf": 0.914699137210846, + "alert_frame": 5104 + }, + { + "activity": "activity_carrying", + "localization": { + 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