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violation-fixes

This repo contains the code of a methodology for mining bug fix patterns, for bugs detectable by rules of the static analysis tool PMD.

Contents:

Dataset

The dataset extracted from our approach can be downloaded from this link.

Repository Structure

Bellow you can see the directories' structure of the repository:

.
├── clusering/: Package containing functionlity for the conducting of clustering experiments.
├── codeParser/: Package containing functionlity for isolation and parsing of fixes' code fragments.
├── pmdFixesDownloader/: Package containing  functionlity for downloading and discovering fixes of PMD rules, leading to proper dataset creation.
├── pmdRulesets/: Contains PMD rulesets on xml format.
├── .gitignore: a simple gitignore file.
├── execute_full.py: a script for the full process execution.
├── GHapiTools.py: Contains useful methods for Github's API querying. Used from pmdFixesDownloader package.
├── __main__.py: The main script of the project, from which the processes and experiments were conducted.
├── codeParseTools.py: Contains useful methods for parsing fixes' code fragments. Used from codeParser package.
├── github_token.txt: Github Auth token, used for GH Search API.
├── gumtreeTools.py: Contains useful methods for executing Gumtree and analyze its outpout.
├── pmdTools.py: Contains useful methods for executing PMD and analyze its outpout.
├── properties.py: Denotes paths where data will be stored and executables.
└── save_dataset.py: a simple script used for saving, the crafted dataset of PMD fixes properly.

Dependencies

Below, the dependencies that are needed for the execution of our methodology are listed.

External Systems involved

  1. PMD : install PMD static analysis tool and its dependencies with the instructions linked here. During our executions version 6.39.0 of PMD was used.
  2. srcML : download and install srcML tool from here. During our executions version 1.0.0 of srcML was used.
  3. Gumtree : download and install Gumtree tool with the instructions linked here. During our executions version 3.0.0 of Gumtree was used.

Python Dependencies

The external python libraries and their versions used in our methodology, are listed in requirements.txt, as shown bellow:

kneed==0.7.0
matplotlib==3.4.2
nltk==3.6.3
numpy==1.20.3
pandas==1.3.3
requests==2.26.0
scikit_learn==1.0.2
scikit_learn_extra==0.2.0

The python dependencies above, can be installed, by executing:

pip install -r /path/to/requirements.txt

inside repo's directory.

The code was executed using Python 3.8.3.

Dataset

The dataset, crafted for the purposes of this project, can be downloaded from here.

The above link, contains a zip where the dataset's files are stored, unzip and read README_EN.txt of the unzipped folder, for further information.

The dataset consists of 11365 fixes of bugs, detectable by 43 useful rules of static analysis tool PMD (version 6.39.0) . For the collection of this dataset, proper commits were searched and their files downloaded from Github's Search API and then certain fixes were isolated by executing PMD.

Execution

In order to execute the full proccess described in this research, and recreate similar results*, you have to follow the steps bellow:

  1. Firstly, all the dependencies of Dependencies section, have to be installed.

  2. Paths for directories and executables, have to be provided in properties.py file.

  3. Paste your Github authentication token in the beggining of github_token.txt file, by replacing:

    ghp_XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX

    with your own token. This token must be valid and is needed for accessing Github API resources, otherwise problems are created with the execution, due to the API's rate limits.

  4. Execute the python script execute_full.py inside repo's directory, as shown bellow:

    python execute_full.py

The code was executed using Python 3.8.3.