Fragmentation in storage systems with duplicate elimination

Deduplication inevitably results in data fragmentation, because logically continuous data is scattered across many disk locations. Even though this significantly increases restore time from backup, the problem is still not well examined. In this work I close this gap by designing algorithms that reduce negative impact of fragmentation on restore time for two major types of fragmentation: internal and inter-version.Internal stream fragmentation is caused by the blocks appearing many times within a single backup. Such phenomenon happens surprisingly often and can result in even three times lower restore bandwidth. With an algorithm utilizing available forward knowledge to enable efficient caching I managed to improve this result on average by 62%-88% with only about 5% extra memory used. Although these results are achieved with limited forward knowledge, they are very close to the ones measured with no such limitation.Inter-version fragmentation is caused by duplicates from previous backups of the same backup set. Since such duplicates are very common due to repeated full backups containing a lot of unchanged data, this type of fragmentation may double the restore time after even a few backups. The context-based rewriting algorithm minimizes this effect by selectively rewriting a small percentage of duplicates during backup, limiting the bandwidth drop from 21.3% to 2.48% on average with only small increase in writing time and temporary space overhead.The two algorithms combined end up in a very effective symbiosis resulting in an average 142% restore bandwidth increase with standard 256MB of per-stream cache memory. In many cases such setup achieves results close to the theoretical maximum achievable with unlimited cache size. Moreover, all the above experiments where performed assuming only one spindle, even though in majority of today’s systems many spindles are used. In a sample setup with ten spindles, the restore bandwidth results are on average 5 times higher than in standard LRU case.Fragmentacja jest nieuniknioną konsekwencją deduplikacji, ponieważ pojedynczy strumień danych rozrzucany jest pomiędzy wiele lokalizacji na dysku. Fakt ten powoduje znaczące wydłużenie czasu odzyskiwania danych z kopii zapasowych. Mimo to, problem wciąż nie jest dobrze zbadany. Niniejsza praca wypełnia tę lukę poprzez propozycje algorytmów, które redukują negatywny wpływ fragmentacji na czas odczytu dla dwóch najważniejszych jej rodzajów: wewnętrznej fragmentacji strumienia oraz fragmentacji pomiędzy różnymi wersjami danych.Wewnętrzna fragmentacja strumienia jest spowodowana blokami powtarzającymi się wielokrotnie w pojedynczym strumieniu danych. To zjawisko zdarza się zaskakująco często i powoduje nawet trzykrotnie niższą wydaj-ność odczytu. Proponowany w tej pracy algorytm efektywnego zarządzania pamięcią, wykorzystujący dostępną wiedzę o danych, jest w stanie podnieść wydajność odczytu o 62-88%, używając przy tym tylko 5% dodatkowej pamięci.Fragmentacja pomiędzy różnymi wersjami danych jest spowodowana duplikatami pochodzącymi z wcześniejszych zapisów tego samego zbioru danych. Ponieważ pełne kopie zapasowe tworzone są regularnie i zawierają duże ilości powtarzających się danych, takie duplikaty występują bardzo często. W przypadku późniejszego odczytu, ich obecność może powodować nawet podwojenie czasu potrzebnego na odzyskanie danych, po utworzeniu zaledwie kilku kopii zapasowych. Algorytm przepisywania kontekstowego minimalizuje ten efekt przez selektywne przepisywanie małej ilości duplikatów podczas zapisu. Takie postępowanie jest w stanie ograniczyć średni spadek wydajności odczytu z 21,3% do 2,48%, kosztem minimalnego zwiększenia czasu zapisudanych i wymagania niewielkiej przestrzeni dyskowej na pamięć tymczasową.Obydwa algorytmy użyte razem działają jeszcze wydajniej, poprawiając przepustowość odczytu przeciętnie o 142% przy standardowej ilości 256MB pamięci cache dla każdego strumienia. Dodatkowo, ponieważ powyższe wyniki zakładają odczyt z jednego dysku, przeprowadzone zostały testy symulujące korzystanie z przepustowości wielu dysków, gdyż takie konfiguracje są bardzo częste w dzisiejszych systemach. Dla przykładu, używając dziecięciu dysków i proponowanych algorytmów, można osiągnąć średnio pięciokrotnie wyższą wydajność niż w standardowym podejściu z algorytmem typu LRU

A survey and classification of storage deduplication systems

The automatic elimination of duplicate data in a storage system commonly known as deduplication is increasingly accepted as an effective technique to reduce storage costs. Thus, it has been applied to different storage types, including archives and backups, primary storage, within solid state disks, and even to random access memory. Although the general approach to deduplication is shared by all storage types, each poses specific challenges and leads to different trade-offs and solutions. This diversity is often misunderstood, thus underestimating the relevance of new research and development. The first contribution of this paper is a classification of deduplication systems according to six criteria that correspond to key design decisions: granularity, locality, timing, indexing, technique, and scope. This classification identifies and describes the different approaches used for each of them. As a second contribution, we describe which combinations of these design decisions have been proposed and found more useful for challenges in each storage type. Finally, outstanding research challenges and unexplored design points are identified and discussed.This work is funded by the European Regional Development Fund (EDRF) through the COMPETE Programme (operational programme for competitiveness) and by National Funds through the Fundacao para a Ciencia e a Tecnologia (FCT; Portuguese Foundation for Science and Technology) within project RED FCOMP-01-0124-FEDER-010156 and the FCT by PhD scholarship SFRH-BD-71372-2010

HIODS: hybrid inline and offline deduplication system

Dissertação de mestrado integrado em Engenharia InformáticaDeduplication is a technique that allows finding and removing duplicate data at storage systems. With the current exponential growth of digital information, this mechanism is becoming more and more desirable for reducing the infrastructural costs of persisting such data. Therefore, deduplication is now being widely applied to several storage appliances serving applications with different requirements (e.g., archival, backup, primary storage). However, deduplication requires additional processing logic for each storage request in order to detect and eliminate duplicate content. Traditionally, this processing is done in the I/O critical path (inline), thus introducing a performance penalty on the throughput and latency of requests being served by the storage appliance. An alternative solution is to do this process as a background task, thus outside of the I/O critical path (offline), at the cost of requiring additional storage space as duplicate content is not found and eliminated immediately. However, the choice of what type of strategy to use is typically done manually and does not take into consideration changes in the applications' workloads. This dissertation proposes HIODS, a hybrid deduplication solution capable of automati cally changing between inline and offline deduplication according to the requirements (e.g., desired storage I/O throughput goal) of applications and their dynamic workloads. The goal is to choose the best strategy that fulfills the targeted I/O performance objectives while optimizing deduplication space savings. Finally, a prototype of HIODS is implemented and evaluated extensively with different storage workloads. Results show that HIODS is able to change its deduplication mode dy namically, according to the storage workload being served, while balancing I/O performance and space savings requirements efficiently.A deduplicação é uma técnica que permite encontrar e remover dados duplicados guardados nos sistemas de armazenamento. Com o crescimento exponencial da informação digital que vivemos atualmente, este mecanismo está a tornar-se cada vez mais popular para reduzir os custos das infraestruturas onde esses dados se encontram alojados. De facto, a deduplicação é, hoje em dia, usada numa grande variedade de serviços de armazenamento que servem diferentes aplicações com requisitos particulares (ex.: arquivo, backup, armazenamento primário). No entanto, a deduplicação adiciona uma camada de processamento extra a cada pedido de armazenamento, de modo a conseguir detetar e eliminar o conteúdo redundante. Tradicionalmente, este processo é realizado durante o caminho crítico do I/O (inline), causando perdas de desempenho e aumentos na latência dos pedidos processados. Uma alternativa é alterar o processamento para segundo plano, aliviando assim os custos no caminho crítico do I/O (offline). Esta solução requer espaço de armazenamento adicional, visto que os duplicados não são encontrados nem eliminados imediatamente. No entanto, a estratégia a seguir é escolhida de forma manual, não tendo em consideração qualquer possível mudança na carga de trabalho das aplicações. Esta dissertação propõe assim o HIODS, um sistema de deduplicação híbrido capaz de alterar entre o modo inline e offline de forma automática considerando os requisitos (ex.: débito do sistema de armazenamento desejado) das aplicações e das suas cargas de trabalho dinâmicas. Por fim, um protótipo do HIODS é implementado e avaliado exaustivamente. Os resultados mostram que o HIODS é capaz de alterar o modo de deduplicação de forma dinâmica e de acordo com a carga de trabalho, considerando os requisitos de desempenho e a eliminação eficiente dos dados duplicados

A Distributed Approach for Disk Defragmentation

تجزئة الملفات هي واحدة من مشاكل الحاسبة الالكترونية  في الجزء المخصص لخزن البيانات داخل الحاسبة (القرص الصلب) التي تحدث عندما يتم استبدال وحذف الملفات بصورة مستمرة. في هذا البحث  تم تصميم نموذج لتجميع اجزاء الملف الواحد الى مجموعة واحدة  في مكان واحد ويتم تنفيذ المهمة من قبل مجموعة من النمل وذلك باستخدام احدى خوارزميات الذكاء الاصطناعي المعروفة بمستعمرات النمل (Ant Colony) .الدراسة البحثية بينت قابلية النموذج للتطبيق في بيئة موزعة كما في انظمة الحوسبة السحابية لحل هكذا مشكلة.  تم عمل محاكاة للنموذج باستخدام بيئة النمذجة البرمجية (NetLogo).Fragmentation is a computing problem that occurs when files of a computer system are replaced frequently. In this paper, the fragments of each file are collected and grouped, thanks to ant-colony optimization ACO, in one place as a mission for a group of ants. The study shows the ability of ants to work in a distributed environment such as cloud computing systems to solve such problem.  The model is simulated using NetLogo

낸드 플래시 저장장치의 성능 및 수명 향상을 위한 프로그램 컨텍스트 기반 최적화 기법

학위논문 (박사)-- 서울대학교 대학원 : 공과대학 컴퓨터공학부, 2019. 2. 김지홍.컴퓨팅 시스템의 성능 향상을 위해, 기존의 느린 하드디스크(HDD)를 빠른 낸드 플래시 메모리 기반 저장장치(SSD)로 대체하고자 하는 연구가 최근 활발히 진행 되고 있다. 그러나 지속적인 반도체 공정 스케일링 및 멀티 레벨링 기술로 SSD 가격을 동급 HDD 수준으로 낮아졌지만, 최근의 첨단 디바이스 기술의 부작용으 로 NAND 플래시 메모리의 수명이 짧아지는 것은 고성능 컴퓨팅 시스템에서의 SSD의 광범위한 채택을 막는 주요 장벽 중 하나이다. 본 논문에서는 최근의 고밀도 낸드 플래시 메모리의 수명 및 성능 문제를 해결하기 위한 시스템 레벨의 개선 기술을 제안한다. 제안 된 기법은 응용 프로 그램의 쓰기 문맥을 활용하여 기존에는 얻을 수 없었던 데이터 수명 패턴 및 중복 데이터 패턴을 분석하였다. 이에 기반하여, 단일 계층의 단순한 정보만을 활용했 던 기존 기법의 한계를 극복함으로써 효과적으로 NAND 플래시 메모리의 성능 및 수명을 향상시키는 최적화 방법론을 제시한다. 먼저, 응용 프로그램의 I/O 작업에는 문맥에 따라 고유한 데이터 수명과 중 복 데이터의 패턴이 존재한다는 점을 분석을 통해 확인하였다. 문맥 정보를 효과 적으로 활용하기 위해 프로그램 컨텍스트 (쓰기 문맥) 추출 방법을 구현 하였다. 프로그램 컨텍스트 정보를 통해 가비지 컬렉션 부하와 제한된 수명의 NAND 플 래시 메모리 개선을 위한 기존 기술의 한계를 효과적으로 극복할 수 있다. 둘째, 멀티 스트림 SSD에서 WAF를 줄이기 위해 데이터 수명 예측의 정확 성을 높이는 기법을 제안하였다. 이를 위해 애플리케이션의 I/O 컨텍스트를 활용 하는 시스템 수준의 접근 방식을 제안하였다. 제안된 기법의 핵심 동기는 데이터 수명이 LBA보다 높은 추상화 수준에서 평가 되어야 한다는 것이다. 따라서 프 로그램 컨텍스트를 기반으로 데이터의 수명을 보다 정확히 예측함으로써, 기존 기법에서 LBA를 기반으로 데이터 수명을 관리하는 한계를 극복한다. 결론적으 로 따라서 가비지 컬렉션의 효율을 높이기 위해 수명이 짧은 데이터를 수명이 긴 데이터와 효과적으로 분리 할 수 있다. 마지막으로, 쓰기 프로그램 컨텍스트의 중복 데이터 패턴 분석을 기반으로 불필요한 중복 제거 작업을 피할 수있는 선택적 중복 제거를 제안한다. 중복 데 이터를 생성하지 않는 프로그램 컨텍스트가 존재함을 분석적으로 보이고 이들을 제외함으로써, 중복제거 동작의 효율성을 높일 수 있다. 또한 중복 데이터가 발생 하는 패턴에 기반하여 기록된 데이터를 관리하는 자료구조 유지 정책을 새롭게 제안하였다. 추가적으로, 서브 페이지 청크를 도입하여 중복 데이터를 제거 할 가능성을 높이는 세분화 된 중복 제거를 제안한다. 제안 된 기술의 효과를 평가하기 위해 다양한 실제 시스템에서 수집 된 I/O 트레이스에 기반한 시뮬레이션 평가 뿐만 아니라 에뮬레이터 구현을 통해 실제 응용을 동작하면서 일련의 평가를 수행했다. 더 나아가 멀티 스트림 디바이스의 내부 펌웨어를 수정하여 실제와 가장 비슷하게 설정된 환경에서 실험을 수행하 였다. 실험 결과를 통해 제안된 시스템 수준 최적화 기법이 성능 및 수명 개선 측면에서 기존 최적화 기법보다 더 효과적이었음을 확인하였다. 향후 제안된 기 법들이 보다 더 발전된다면, 낸드 플래시 메모리가 초고속 컴퓨팅 시스템의 주 저장장치로 널리 사용되는 데에 긍정적인 기여를 할 수 있을 것으로 기대된다.Replacing HDDs with NAND flash-based storage devices (SSDs) has been one of the major challenges in modern computing systems especially in regards to better performance and higher mobility. Although the continuous semiconductor process scaling and multi-leveling techniques lower the price of SSDs to the comparable level of HDDs, the decreasing lifetime of NAND flash memory, as a side effect of recent advanced device technologies, is emerging as one of the major barriers to the wide adoption of SSDs in highperformance computing systems. In this dissertation, system-level lifetime improvement techniques for recent high-density NAND flash memory are proposed. Unlike existing techniques, the proposed techniques resolve the problems of decreasing performance and lifetime of NAND flash memory by exploiting the I/O context of an application to analyze data lifetime patterns or duplicate data contents patterns. We first present that I/O activities of an application have distinct data lifetime and duplicate data patterns. In order to effectively utilize the context information, we implemented the program context extraction method. With the program context, we can overcome the limitations of existing techniques for improving the garbage collection overhead and limited lifetime of NAND flash memory. Second, we propose a system-level approach to reduce WAF that exploits the I/O context of an application to increase the data lifetime prediction for the multi-streamed SSDs. The key motivation behind the proposed technique was that data lifetimes should be estimated at a higher abstraction level than LBAs, so we employ a write program context as a stream management unit. Thus, it can effectively separate data with short lifetimes from data with long lifetimes to improve the efficiency of garbage collection. Lastly, we propose a selective deduplication that can avoid unnecessary deduplication work based on the duplicate data pattern analysis of write program context. With the help of selective deduplication, we also propose fine-grained deduplication which improves the likelihood of eliminating redundant data by introducing sub-page chunk. It also resolves technical difficulties caused by its finer granularity, i.e., increased memory requirement and read response time. In order to evaluate the effectiveness of the proposed techniques, we performed a series of evaluations using both a trace-driven simulator and emulator with I/O traces which were collected from various real-world systems. To understand the feasibility of the proposed techniques, we also implemented them in Linux kernel on top of our in-house flash storage prototype and then evaluated their effects on the lifetime while running real-world applications. Our experimental results show that system-level optimization techniques are more effective over existing optimization techniques.I. Introduction . . . . . . . . . . . . . . . . . . . . . . . . . . . 1 1.1 Motivation . . . . . . . . . . . . . . . . . . . . . . . . . . . 1 1.1.1 Garbage Collection Problem . . . . . . . . . . . . . 2 1.1.2 Limited Endurance Problem . . . . . . . . . . . . . 4 1.2 Dissertation Goals . . . . . . . . . . . . . . . . . . . . . . . 5 1.3 Contributions . . . . . . . . . . . . . . . . . . . . . . . . . 6 1.4 Dissertation Structure . . . . . . . . . . . . . . . . . . . . . 7 II. Background . . . . . . . . . . . . . . . . . . . . . . . . . . . 9 2.1 NAND Flash Memory System Software . . . . . . . . . . . 9 2.2 NAND Flash-Based Storage Devices . . . . . . . . . . . . . 10 2.3 Multi-stream Interface . . . . . . . . . . . . . . . . . . . . 11 2.4 Inline Data Deduplication Technique . . . . . . . . . . . . . 12 2.5 Related Work . . . . . . . . . . . . . . . . . . . . . . . . . 13 2.5.1 Data Separation Techniques for Multi-streamed SSDs 13 2.5.2 Write Traffic Reduction Techniques . . . . . . . . . 15 2.5.3 Program Context based Optimization Techniques for Operating Systems . . . . . . . . 18 III. Program Context-based Analysis . . . . . . . . . . . . . . . . 21 3.1 Definition and Extraction of Program Context . . . . . . . . 21 3.2 Data Lifetime Patterns of I/O Activities . . . . . . . . . . . 24 3.3 Duplicate Data Patterns of I/O Activities . . . . . . . . . . . 26 IV. Fully Automatic Stream Management For Multi-Streamed SSDs Using Program Contexts . . 29 4.1 Overview . . . . . . . . . . . . . . . . . . . . . . . . . . . 29 4.2 Motivation . . . . . . . . . . . . . . . . . . . . . . . . . . . 33 4.2.1 No Automatic Stream Management for General I/O Workloads . . . . . . . . . 33 4.2.2 Limited Number of Supported Streams . . . . . . . 36 4.3 Automatic I/O Activity Management . . . . . . . . . . . . . 38 4.3.1 PC as a Unit of Lifetime Classification for General I/O Workloads . . . . . . . . . . . 39 4.4 Support for Large Number of Streams . . . . . . . . . . . . 41 4.4.1 PCs with Large Lifetime Variances . . . . . . . . . 42 4.4.2 Implementation of Internal Streams . . . . . . . . . 44 4.5 Design and Implementation of PCStream . . . . . . . . . . 46 4.5.1 PC Lifetime Management . . . . . . . . . . . . . . 46 4.5.2 Mapping PCs to SSD streams . . . . . . . . . . . . 49 4.5.3 Internal Stream Management . . . . . . . . . . . . . 50 4.5.4 PC Extraction for Indirect Writes . . . . . . . . . . 51 4.6 Experimental Results . . . . . . . . . . . . . . . . . . . . . 53 4.6.1 Experimental Settings . . . . . . . . . . . . . . . . 53 4.6.2 Performance Evaluation . . . . . . . . . . . . . . . 55 4.6.3 WAF Comparison . . . . . . . . . . . . . . . . . . . 56 4.6.4 Per-stream Lifetime Distribution Analysis . . . . . . 57 4.6.5 Impact of Internal Streams . . . . . . . . . . . . . . 58 4.6.6 Impact of the PC Attribute Table . . . . . . . . . . . 60 V. Deduplication Technique using Program Contexts . . . . . . 62 5.1 Overview . . . . . . . . . . . . . . . . . . . . . . . . . . . 62 5.2 Selective Deduplication using Program Contexts . . . . . . . 63 5.2.1 PCDedup: Improving SSD Deduplication Efficiency using Selective Hash Cache Management . . . . . . 63 5.2.2 2-level LRU Eviction Policy . . . . . . . . . . . . . 68 5.3 Exploiting Small Chunk Size . . . . . . . . . . . . . . . . . 70 5.3.1 Fine-Grained Deduplication . . . . . . . . . . . . . 70 5.3.2 Read Overhead Management . . . . . . . . . . . . . 76 5.3.3 Memory Overhead Management . . . . . . . . . . . 80 5.3.4 Experimental Results . . . . . . . . . . . . . . . . . 82 VI. Conclusions . . . . . . . . . . . . . . . . . . . . . . . . . . . . 88 6.1 Summary and Conclusions . . . . . . . . . . . . . . . . . . 88 6.2 Future Work . . . . . . . . . . . . . . . . . . . . . . . . . . 89 6.2.1 Supporting applications that have unusal program contexts . . . . . . . . . . . . . 89 6.2.2 Optimizing read request based on the I/O context . . 90 6.2.3 Exploiting context information to improve fingerprint lookups . . . . .. . . . . . 91 Bibliography . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 92Docto

FlatPack: Flexible Compaction of Compressed Memory

The capacity and bandwidth of main memory is an increasingly important factor in computer system performance. Memory compression and compaction have been combined to increase effective capacity and reduce costly page faults. However, existing systems typically maintain compaction at the expense of bandwidth. One major cause of extra traffic in such systems is page overflows, which occur when data compressibility degrades and compressed pages must be reorganized. This paper introduces FlatPack, a novel approach to memory compaction which is able to mitigate this overhead by reorganizing compressed data dynamically with less data movement. Reorganization is carried out by an addition to the memory controller, without intervention from software. FlatPack is able to maintain memory capacity competitive with current state-of-the-art memory compression designs, while reducing mean memory traffic by up to 67%. This yields average improvements in performance and total system energy consumption over existing memory compression solutions of 31-46% and 11-25%, respectively. In total, FlatPack improves on baseline performance and energy consumption by 108% and 40%, respectively, in a single-core system, and 83% and 23%, respectively, in a multi-core system