This repository consists of all relevant artifacts of ASE'22 paper "TransplantFix: Graph Differencing-based Code Transplantation for Automated Program Repair".
- Integration into Repairnator (eclipse/repairnator#1257)
- Improve Transplantfix to better assist in real-world manual debugging.
The framework of TransplantFix is presented as follows:
We aim to contribute a novel APR technique that leverages graph differencing-based code transplantation to the APR community. We release the complete source code TransplantFix that covers the whole automated program repair pipeline, including fault localization, patch generation, patch validation. We hope the publicly available implementation could facilitate follow-up research towards conquering more complicated/new real-world bugs.
The implementation and evaluation of TransplantFix are performed with:
- OS: Ubuntu 16.04
- JDK: JDK 7 (for Defects4J v1.2) and JDK 8 (for Defects4J v2.0)
- Python 3 (with Conda environment)
- Maven 3
- To configure Defects4J v1.2:
cd datasets/
git clone https://github.com/rjust/defects4j.git defects4j
cd defects4j
git checkout v1.4.0
./init.sh- To configure Defects4J v2.0:
cd datasets/
git clone https://github.com/rjust/defects4j.git defects4j2
cd defects4j2
git checkout v2.0.0
./init.shTo package projects of fault localization, patch generation (i.e., the core module of TransplantFix), and patch validation:
cd apr_tools/Transplantfix && ./package.sh
cd fl_modules/fault_localizer/package.sh && ./package.sh
cd patch_validator/patch_validator/package.sh && ./package.shTo run TransplantFix on Defects4J v1.2 and v2.0:
cd Runner
export PYTHONPATH=./dataset:./apr:./localization:${PYTHONPATH}
python ./Run_bugs_d4jv1.py
python ./Run_bugs_d4jv2.py├── apr_tools
│ └── Transplantfix: source code and build scripts of TransplantFix
├── datasets
│ ├── dataset_info: necessary information to run defects4j v1.2 and v2.0 bugs, e.g., classpath
├── doc
│ └── figs: figure of TranplantFix framework
├── fl_modules
│ └── fault_localizer: source code and build scripts of our fault localizer
├── LICENSE: license
├── literature_review
│ └── literature_review_on_42_apr_tools.xlsx: literature review data of 42 APR tools
├── patches
│ ├── defects4j: patches generated by TranplantFix for Defects4J v1.2 bugs
│ └── defects4j2: patches generated by TranplantFix for Defects4J v2.0 bugs
├── patch_validator
│ └── patch_validator: source code and build scripts of our patch validator
├── README.md
└── Runner: scripts for running TranplantFix on Defects4J v1.2 and v2.0P.S. The list of 395 bugs in Defects4J v1.2 is available at Runner/bugs_info/defects4j.txt, and the list of 444 new bugs in Defects4J v2.0 is available at Runner/bugs_info/defects4j2_uniq.txt.
Apart from the literature review data available at literature review, we further present the detail of each APR tool, including its publicly available repository, publication title, etc. We aim to present a comprehensive review to the APR community.
| ID | APR Tool | Year | Publicly Available Repository | Publication | Venue |
|---|---|---|---|---|---|
| 1 | Nopol | 2016 | https://github.com/SpoonLabs/nopol/ | Nopol: Automatic repair of conditional statement bugs in java programs | TSE |
| 2 | jKali | 2016 | https://github.com/Spirals-Team/defects4j-repair/ | Astor: A program repair library for java | ISSTA |
| 3 | jMutRepair | 2016 | https://github.com/SpoonLabs/astor/experiments/ | Astor: A program repair library for java | ISSTA |
| 4 | jGenProg | 2016 | https://github.com/Spirals/Team/defects4j/repair/ | Astor: A program repair library for java | ISSTA |
| 5 | HDRepair | 2016 | https://github.com/xuanbachle/bugfixes | History driven program repair | SANER |
| 6 | DynaMoth | 2016 | https://github.com/SpoonLabs/nopol/ | Dynamoth: dynamic code synthesis for automatic program repair | Proceedings of the 11th International Workshop on Automation of Software Test |
| 7 | JAID | 2017 | https://bitbucket.org/maxpei/jaid/wiki/Home | Contract-based Program Repair Without the Contracts | ASE |
| 8 | ACS | 2017 | https://github.com/Adobee/ACS | Precise condition synthesis for program repair | ICSE |
| 9 | ssFix | 2017 | https://github.com/qixin5/ssFix | Leveraging syntax-related code for automated program repair | ASE |
| 10 | ELIXIR | 2017 | - | Elixir: Effective object-oriented program repair | ASE |
| 11 | Cardumen | 2018 | https://github.com/SpoonLabs/astor-experiments/ | Ultra-large repair search space with automatically mined templates: The cardumen mode of astor | International Symposium on Search Based Software Engineering（SBSE） |
| 12 | ARJA | 2018 | https://github.com/yyxhdy/arja | ARJA: Automated repair of java programs via multi-objective genetic programming | TSE |
| 13 | LSRepair | 2018 | https://github.com/AutoProRepair/LSRepair | LSRepair: Live search of fix ingredients for automated program repair | APSEC |
| 14 | SketchFix | 2018 | https://github.com/SketchFix/SketchFix | Towards practical program repair with on-demand candidate generation | ICSE |
| 15 | CapGen | 2018 | https://github.com/justinwm/CapGen | Context-aware patch generation for better automated program repair | ICSE |
| 16 | SOFix | 2018 | - | Mining stackoverflow for program repair | SANER |
| 17 | SimFix | 2018 | https://github.com/xgdsmileboy/SimFix | Shaping program repair space with existing patches and similar code | ISSTA |
| 18 | GenProg-A | 2018 | https://github.com/yyxhdy/arja | ARJA: Automated repair of java programs via multi-objective genetic programming | TSE |
| 19 | RSRepair-A | 2018 | https://github.com/yyxhdy/arja | ARJA: Automated repair of java programs via multi-objective genetic programming | TSE |
| 20 | Kali-A | 2018 | https://github.com/yyxhdy/arja | ARJA: Automated repair of java programs via multi-objective genetic programming | TSE |
| 21 | VFix | 2019 | - | VFix: value-flow-guided precise program repair for null pointer dereferences | ICSE |
| 22 | SEQUENCER | 2019 | https://github.com/kth/sequencer | Sequencer: Sequence-to-sequence learning for end-to-end program repair | TSE |
| 23 | GenPat | 2019 | https://github.com/xgdsmileboy/GenPat | Inferring program transformations from singular examples via big code | ASE |
| 24 | kPAR | 2019 | https://github.com/SerVal-DTF/FL-VS-APR | You cannot fix what you cannot find! an investigation of fault localization bias in benchmarking automated program repair systems | ICST |
| 25 | iFixR | 2019 | - | iFixR: bug report driven program repair | ESEC/FSE |
| 26 | ConFix | 2019 | https://github.com/thwak/ConFix | Automatic patch generation with context-based change application | EMSE |
| 27 | AVATAR | 2019 | https://github.com/SerVal-Repair/AVATAR | Avatar: Fixing semantic bugs with fix patterns of static analysis violations | SANER |
| 28 | Tbar | 2019 | https://github.com/SerVal-DTF/TBar | TBar: revisiting template-based automated program repair | ISSTA |
| 29 | PraPR | 2019 | https://github.com/prapr/prapr | Practical program repair via bytecode mutation | ISSTA |
| 30 | HERCULES | 2019 | - | Harnessing evolution for multi-hunk program repair | ICSE |
| 31 | DeepRepair | 2019 | https://github.com/SpoonLabs/astor-experiments/ | Sorting and Transforming Program Repair Ingredients via Deep Learning Code Similarities | SANER |
| 32 | FixMiner | 2020 | https://github.com/SerVal-DTF/fixminer-core | Fixminer: Mining relevant fix patterns for automated program repair | EMSE |
| 33 | CODIT | 2020 | - | Codit: Code editing with tree-based neural models | TSE |
| 34 | DLFix | 2020 | https://github.com/ICSE-2019-AUTOFIX/ICSE-2019-AUTOFIX | DLFix: Context-based Code Transformation Learning for Automated Program Repair | ICSE |
| 35 | ARJA-e | 2020 | https://github.com/yyxhdy/arja/tree/arja-e | Toward better evolutionary program repair: An integrated approach | TOSEM |
| 36 | RESTORE | 2020 | - | Restore: Retrospective fault localization enhancing automated program repair | TSE |
| 37 | CoCoNuT | 2020 | https://github.com/lin-tan/CoCoNut-Artifact | CoCoNuT: combining context-aware neural translation models using ensemble for program repair | ISSTA |
| 38 | JAID-revise | 2020 | https://bitbucket.org/maxpei/jaid | Contract-based program repair without the contracts: An extended study | TSE |
| 39 | CURE | 2021 | https://github.com/lin-tan/CURE | CURE: Code-Aware Neural Machine Translation for Automatic Program Repair | ICSE |
| 40 | VarFix | 2021 | https://chupanw.github.io/varfix-supplement/ | VarFix: Balancing Edit Expressiveness and Search Effectiveness in Automated Program Repair | ESEC/FSE |
| 41 | Recoder | 2021 | https://github.com/pkuzqh/Recoder | A syntax-guided edit decoder for neural program repair | ESEC/FSE |
| 42 | RewardRepair | 2022 | https://anonymous.4open.science/r/RewardRepair/README.md | Neural Program Repair with Execution-based Backpropagation | ICSE |
The complete repair logs of TransplantFix on Defects4J v1.2 and v2.0 https://doi.org/10.6084/m9.figshare.21716738.v1.
The repository is licensed under the GNU GPLv3 license. See LICENSE for details.