In the field of genetic algorithms, a schema (plural: schemata) is a template that represents a subset of potential solutions. These templates use fixed symbols (e.g., `0` or `1`) for specific positions and a wildcard or "don't care" symbol (often `#` or ``) for others. The defining length of a schema, denoted as L(H), measures the distance between the outermost fixed positions in the template. According to the Schema theorem, a schema with a shorter defining length is less likely to be disrupted by the genetic operator of crossover. As a result, short schemata are considered more robust and are more likely to be propagated to the next generation. In genetic programming, where solutions are often represented as trees, the defining length is the number of links in the minimum tree fragment that includes all the non-wildcard symbols within a schema H. == Example == The defining length is calculated by subtracting the position of the first fixed symbol from the position of the last one. Using 1-based indexing for a string of length 5: The schema `1##0#` has its first fixed symbol (`1`) at position 1 and its last fixed symbol (`0`) at position 4. Its defining length is 4 − 1 = 3. The schema `00##0` has its first fixed symbol at position 1 and its last at position 5. Its defining length is 5 − 1 = 4. The schema `##0##` has only one fixed symbol at position 3. The first and last fixed positions are the same, so its defining length is 3 − 3 = 0.
ZipBooks
ZipBooks is a free online accounting software company based in American Fork, Utah. The cloud-based software is an accounting and bookkeeping tool that helps business owners process credit cards, track finances, and send invoices, among other features. == History == ZipBooks was founded by Tim Chaves in June 2015, backed by venture capital firm Peak Ventures. The company secured an additional $2 million of funding in July 2016, and in 2017 it was awarded a $100,000 economic grant by the Utah Governor's Office of Economic Development Technology Commercialization and Innovation Program. == Products == ZipBooks' core modules are invoicing, transactions, bills, reporting, time tracking, contacts, and payroll. Accrual accounting was added in 2017. The application is available on G Suite, iOS, Slack, and as a web application. == Reception == Computerworld compared ZipBooks favorably with other accounting software. PC Magazine praised its user experience, but stated it lacked "a lot of features that competing sites offer".
Ecoinformatics
Ecoinformatics, or ecological informatics, is the science of information in ecology and environmental science. It integrates environmental and information sciences to define entities and natural processes with language common to both humans and computers. However, this is a rapidly developing area in ecology and there are alternative perspectives on what constitutes ecoinformatics. A few definitions have been circulating, mostly centered on the creation of tools to access and analyze natural system data. However, the scope and aims of ecoinformatics are certainly broader than the development of metadata standards to be used in documenting datasets. Ecoinformatics aims to facilitate environmental research and management by developing ways to access, integrate databases of environmental information, and develop new algorithms enabling different environmental datasets to be combined to test ecological hypotheses. Ecoinformatics is related to the concept of ecosystem services. Ecoinformatics characterize the semantics of natural system knowledge. For this reason, much of today's ecoinformatics research relates to the branch of computer science known as knowledge representation, and active ecoinformatics projects are developing links to activities such as the Semantic Web. Current initiatives to effectively manage, share, and reuse ecological data are indicative of the increasing importance of fields like ecoinformatics to develop the foundations for effectively managing ecological information. Examples of these initiatives are National Science Foundation Datanet projects, DataONE, Data Conservancy, and Artificial Intelligence for Environment & Sustainability. == Software Development Lifecycle == Central to the concept of ecoinformatics is the Software Development Lifecycle (SDLC), a systematic framework for writing, implementing, and maintaining software products. Typically in Ecoinformatics projects, the development pipeline includes data collection, usually from several different environmental data sources, then integrating these data sources together, and then analyzing the data. Here, each step of the SDLC is described in the context of ecoinformatics, per Michener et al. It is important to note that the plan, collect, assure, describes and preserve steps refer to the data collection entity, which can be individual researchers or large data-collection networks, while the discover, integrate, and analyze steps typically refer to the individual researcher. Plan: Ecoinformatics projects require data from several databases. Each database holds different data, and therefore researchers should identify what types of environmental or ecological data they will need to answer their research question. Collect: Data is collected in several different ways. In ecoinformatics, this is usually restricted to manually entering data into a spreadsheet, and parsing data from an existing database. The growth of relational databases has made it easier for ecologists to download relevant data and integrate datasets together Assure: Data entries should be checked thoroughly to validate their accuracy and usability, such as to check for outliers and erroneous points. The same principle applies to data downloaded from datasets. This responsibility falls on both the ecologist downloading the data, and the entity that sets up the data collection system. Describe: An accurate description of the metadata of a dataset that is used in a study should include enough information to deduce the data collection and processing methodology, when the data were collected, why the data were collected, and how the data were stored. This is important for reproducibility, especially for projects that build on each other and may recycle data Preserve: After data is collected by an institutional entity, it should be archived such that it is easily accessible. Ideally, this is in databases that are maintained and not at risk of deprecation Discover: While there are good practices for discovering data to start a research project, this process is often marred by a lack of usable, published data, as researchers may collect data specific to their study, but may not publish this data for wider use. On the data collection end, this can be addressed by better data-sharing practices, such as by linking datasets when publishing papers or studies. On the data procurement end, this can be addressed by more precise data searching, such as using key words to find relevant datasets. Integrate: Synthesizing datasets together can be difficult and labor-intensive, largely due to the methodological differences in data collection. There are several approaches to this, but the best practices typically involve computational approaches, namely using R or Python, to automate the processes and prevent errors Analyze: Data analysis can take several forms, and should be tailored to the specific ecological project. However, all data analysis methods should be well-documented, including the procedure for analysis, justification for analysis methods, and any shortcomings in a specific approach. == Applications of Ecoinformatics Across Ecology == === Ecosystem Ecology === Source: Ecosystem studies, by definition, encompass interactions across the entire life sciences spectrum, from microscopic biochemical reactions to large-scale geological phenomena. As a result, big databases may not be designed specifically for any particular research question, but should be inclusive enough to support most studies. Since ecosystem-level questions require a broad perspective, data-related ecosystem projects would likely incorporate data from several databases. A common framework for incorporating data into ecosystem-level studies is the network science model, in which data collection mechanisms and resources are treated like a large, interconnected network instead of individual entities. The network may include several data collection stations within one databases, or may span across multiple databases. Currently there are several large-scale networks, but they do not generate data on the scale to consider ecology as a big data science. A current challenge for ecoinformatics in ecosystem ecology is that most funding is prioritized for generating new data rather than maintaining existing data infrastructures. Integrating data across the different spatial scales can also be difficult, since each dataset may hold different types of data. === Urban Ecology === Source: The current push for smart cities, and sensor network integration into infrastructure, has positioned as a major source of data for ecological studies. Typical urban ecology questions address the effects of urbanization on the local ecosystem, and how to drive future development to promote urban biodiversity. While sensor networks in cities typically collect environmental data to optimize city processes, they may also be used for ecological initiatives, especially with respect to understanding the complex, multi-layered relationship between cities and their local ecosystem. It can also be used to better understand the current landscape of cities, and identify avenues for rewinding of cities. For example, analyzing mobility patterns can identify areas that may lend themselves well to building parks and green spaces. Bird watching data can also be used to identify the types of bird species in a local area. === Infectious Disease === Source: Like other disciplines of ecology, emerging infectious disease and epidemiology span multiple scales, from understanding the genetics that drive disease trends to large-scale spatiotemporal analyses. As a result, infectious disease studies can incorporate everything from bioinformatics, genetic sequences, amino acid sequences, and environmental observation data. On the micro-scale, these data can then be used to predict infectivity/transmissibility, drug resistance, drug candidates, and mutation sites. On the macro-scale, it can be used to identify societal trends or environmental factors that lend themselves to spillover, locations of infection, and practices that cause disease transmission. == Databases == Source: USGS National Streamflow sensor network GBIF Neotoma Paleobiology database European Vegetation Archive USDA Forest Inventory Analysis TRY BIEN AmeriFlux TEAM iNaturalist NEON GLEON LTER CZO TERN SAEON
NewSQL
NewSQL is a class of relational database management systems that seek to provide the scalability of NoSQL systems for online transaction processing (OLTP) workloads while maintaining the ACID guarantees of a traditional database system. Many enterprise systems that handle high-profile data (e.g., financial and order processing systems) are too large for conventional relational databases, but have transactional and consistency requirements that are not practical for NoSQL systems. The only options previously available for these organizations were to either purchase more powerful computers or to develop custom middleware that distributes requests over conventional DBMS. Both approaches feature high infrastructure costs and/or development costs. NewSQL systems attempt to reconcile the conflicts. == History == The term was first used by 451 Group analyst Matthew Aslett in a 2011 research paper discussing the rise of a new generation of database management systems. One of the first NewSQL systems was the H-Store parallel database system. == Applications == Typical applications are characterized by heavy OLTP transaction volumes. OLTP transactions; are short-lived (i.e., no user stalls) touch small amounts of data per transaction use indexed lookups (no table scans) have a small number of forms (a small number of queries with different arguments). However, some support hybrid transactional/analytical processing (HTAP) applications. Such systems improve performance and scalability by omitting heavyweight recovery or concurrency control. == List of NewSQL-databases == Apache Trafodion Clustrix CockroachDB Couchbase CrateDB Google Spanner MySQL Cluster NuoDB OceanBase Pivotal GemFire XD SequoiaDB SingleStore was formerly known as MemSQL. TIBCO Active Spaces TiDB TokuDB TransLattice Elastic Database VoltDB YDB YugabyteDB == Features == The two common distinguishing features of NewSQL database solutions are that they support online scalability of NoSQL databases and the relational data model (including ACID consistency) using SQL as their primary interface. NewSQL systems can be loosely grouped into three categories: === New architectures === NewSQL systems adopt various internal architectures. Some systems employ a cluster of shared-nothing nodes, in which each node manages a subset of the data. They include components such as distributed concurrency control, flow control, and distributed query processing. === SQL engines === The second category are optimized storage engines for SQL. These systems provide the same programming interface as SQL, but scale better than built-in engines. === Transparent sharding === These systems automatically split databases across multiple nodes using Raft or Paxos consensus algorithm.
Document
A document is a written, drawn, presented, or memorialized representation of thought, often the manifestation of non-fictional, as well as fictional, content. The etymology of the word "document" derives from the Latin documentum, which denotes a "teaching" or "lesson": the verb doceō denotes "to teach". Historically, the term "document" was usually used to indicate written proof useful as evidence of a truth or fact. In the Computer Age, the term "document" typically refers to a primarily textual computer file, encompassing its structural and format elements, such as fonts, colors, and images. In the contemporary era, the definition of "document" has expanded beyond its traditional medium, such as paper, to encompass electronic documents as well. History, events, examples, opinions, stories, and creativity can all be expressed in documents. "Documentation" is distinct because it has more denotations than "document". Documents are also distinguished from "realia", which are three-dimensional objects that would otherwise satisfy the definition of "document" because they memorialize or represent thought. Documents are usually considered to be two-dimensional representations. == Abstract definitions == The concept of "document" has been defined by Suzanne Briet as "any concrete or symbolic indication, preserved or recorded, for reconstructing or for proving a phenomenon, whether physical or mental." An often-cited article concludes that "the evolving notion of document" among Jonathan Priest, Paul Otlet, Briet, Walter Schürmeyer, and the other documentalists increasingly emphasized whatever functioned as a document rather than traditional physical forms of documents. The shift to digital technology would seem to make this distinction even more important. David M. Levy has said that an emphasis on the technology of digital documents has impeded our understanding of digital documents as documents. A conventional document, such as a mail message or a technical report, exists physically in digital technology as a string of bits, as does everything else in a digital environment. As an object of study, it has been made into a document. It has become physical evidence by those who study it. "Document" is defined in library and information science and documentation science as a fundamental, abstract idea: the word denotes everything that may be represented or memorialized to serve as evidence. The classic example provided by Briet is an antelope: "An antelope running wild on the plains of Africa should not be considered a document[;] she rules. But if it were to be captured, taken to a zoo and made an object of study, it has been made into a document. It has become physical evidence being used by those who study it. Indeed, scholarly articles written about the antelope are secondary documents, since the antelope itself is the primary document." This opinion has been interpreted as an early expression of actor–network theory. == Kinds == A document can be structured, like tabular documents, lists, forms, or scientific charts, semi-structured like a book or a newspaper article, or unstructured like a handwritten note. Documents are sometimes classified as secret, private, or public. They may also be described as drafts or proofs. When a document is copied, the source is denominated the "original". Documents are used in numerous fields, e.g.: Academia: manuscript, thesis, paper, journal, chart, and technical drawing Media: mock-up, script, image, photography, and newspaper article Administration, law, and politics: application, brief, certificate, commission, constitutional document, form, gazette, identity document, license, manifesto, summons, census, and white paper Business: invoice, request for proposal, proposal, contract, packing slip, manifest, report (detailed and summary), spreadsheet, material safety data sheet, waybill, bill of lading, financial statement, nondisclosure agreement (NDA), mutual nondisclosure agreement, and user guide Geography and planning: topographic map, cadastre, legend, and architectural plan Such standard documents can be drafted based on a template. == Drafting == The page layout of a document is how information is graphically arranged in the space of the document, e.g., on a page. If the appearance of the document is of concern, the page layout is generally the responsibility of a graphic designer. Typography concerns the design of letter and symbol forms and their physical arrangement in the document (see typesetting). Information design concerns the effective communication of information, especially in industrial documents and public signs. Simple textual documents may not require visual design and may be drafted only by an author, clerk, or transcriber. Forms may require a visual design for their initial fields, but not to complete the forms. == Media == Traditionally, the medium of a document was paper and the information was applied to it in ink, either by handwriting (to make a manuscript) or by a mechanical process (e.g., a printing press or laser printer). Today, some short documents also may consist of sheets of paper stapled together. Historically, documents were inscribed with ink on papyrus (starting in ancient Egypt) or parchment; scratched as runes or carved on stone using a sharp tool, e.g., the Tablets of Stone described in the Bible; stamped or incised in clay and then baked to make clay tablets, e.g., in the Sumerian and other Mesopotamian civilizations. The papyrus or parchment was often rolled into a scroll or cut into sheets and bound into a codex (book). Contemporary electronic means of memorializing and displaying documents include: Monitor of a desktop computer, laptop, tablet; optionally with a printer to produce a hard copy; Personal digital assistant; Dedicated e-book device; Electronic paper, typically, using the Portable Document Format (PDF); Information appliance; Digital audio player; and Radio and television service provider. Digital documents usually require a specific file format to be presentable in a specific medium. == In law == Documents in all forms frequently serve as material evidence in criminal and civil proceedings. The forensic analysis of such a document is within the scope of questioned document examination. To catalog and manage the large number of documents that may be produced during litigation, Bates numbering is often applied to all documents in the lawsuit so that each document has a unique, arbitrary, identification number.
Hyperparameter (machine learning)
In machine learning, a hyperparameter is a parameter that can be set in order to define any configurable part of a model's learning process. Hyperparameters can be classified as either model hyperparameters (such as the topology and size of a neural network) or algorithm hyperparameters (such as the learning rate and the batch size of an optimizer). These are named hyperparameters in contrast to parameters, which are characteristics that the model learns from the data. Hyperparameters are not required by every model or algorithm. Some simple algorithms such as ordinary least squares regression require none. However, the LASSO algorithm, for example, adds a regularization hyperparameter to ordinary least squares which must be set before training. Even models and algorithms without a strict requirement to define hyperparameters may not produce meaningful results if these are not carefully chosen. However, optimal values for hyperparameters are not always easy to predict. Some hyperparameters may have no meaningful effect, or one important variable may be conditional upon the value of another. Often a separate process of hyperparameter tuning is needed to find a suitable combination for the data and task. As well as improving model performance, hyperparameters can be used by researchers to introduce robustness and reproducibility into their work, especially if it uses models that incorporate random number generation. == Considerations == The time required to train and test a model can depend upon the choice of its hyperparameters. A hyperparameter is usually of continuous or integer type, leading to mixed-type optimization problems. The existence of some hyperparameters is conditional upon the value of others, e.g. the size of each hidden layer in a neural network can be conditional upon the number of layers. === Difficulty-learnable parameters === The objective function is typically non-differentiable with respect to hyperparameters. As a result, in most instances, hyperparameters cannot be learned using gradient-based optimization methods (such as gradient descent), which are commonly employed to learn model parameters. These hyperparameters are those parameters describing a model representation that cannot be learned by common optimization methods, but nonetheless affect the loss function. An example would be the tolerance hyperparameter for errors in support vector machines. === Untrainable parameters === Sometimes, hyperparameters cannot be learned from the training data because they aggressively increase the capacity of a model and can push the loss function to an undesired minimum (overfitting to the data), as opposed to correctly mapping the richness of the structure in the data. For example, if we treat the degree of a polynomial equation fitting a regression model as a trainable parameter, the degree would increase until the model perfectly fit the data, yielding low training error, but poor generalization performance. === Tunability === Most performance variation can be attributed to just a few hyperparameters. The tunability of an algorithm, hyperparameter, or interacting hyperparameters is a measure of how much performance can be gained by tuning it. For an LSTM, while the learning rate followed by the network size are its most crucial hyperparameters, batching and momentum have no significant effect on its performance. Although some research has advocated the use of mini-batch sizes in the thousands, other work has found the best performance with mini-batch sizes between 2 and 32. === Robustness === An inherent stochasticity in learning directly implies that the empirical hyperparameter performance is not necessarily its true performance. Methods that are not robust to simple changes in hyperparameters, random seeds, or even different implementations of the same algorithm cannot be integrated into mission critical control systems without significant simplification and robustification. Reinforcement learning algorithms, in particular, require measuring their performance over a large number of random seeds, and also measuring their sensitivity to choices of hyperparameters. Their evaluation with a small number of random seeds does not capture performance adequately due to high variance. Some reinforcement learning methods, e.g. DDPG (Deep Deterministic Policy Gradient), are more sensitive to hyperparameter choices than others. == Optimization == Hyperparameter optimization finds a tuple of hyperparameters that yields an optimal model which minimizes a predefined loss function on given test data. The objective function takes a tuple of hyperparameters and returns the associated loss. Typically these methods are not gradient based, and instead apply concepts from derivative-free optimization or black box optimization. == Reproducibility == Apart from tuning hyperparameters, machine learning involves storing and organizing the parameters and results, and making sure they are reproducible. In the absence of a robust infrastructure for this purpose, research code often evolves quickly and compromises essential aspects like bookkeeping and reproducibility. Online collaboration platforms for machine learning go further by allowing scientists to automatically share, organize and discuss experiments, data, and algorithms. Reproducibility can be particularly difficult for deep learning models. For example, research has shown that deep learning models depend very heavily even on the random seed selection of the random number generator.
External memory algorithm
In computing, external memory algorithms or out-of-core algorithms are algorithms that are designed to process data that are too large to fit into a computer's main memory at once. Such algorithms must be optimized to efficiently fetch and access data stored in slow bulk memory (auxiliary memory) such as hard drives or tape drives, or when memory is on a computer network. External memory algorithms are analyzed in the external memory model. == Model == External memory algorithms are analyzed in an idealized model of computation called the external memory model (or I/O model, or disk access model). The external memory model is an abstract machine similar to the RAM machine model, but with a cache in addition to main memory. The model captures the fact that read and write operations are much faster in a cache than in main memory, and that reading long contiguous blocks is faster than reading randomly using a disk read-and-write head. The running time of an algorithm in the external memory model is defined by the number of reads and writes to memory required. The model was introduced by Alok Aggarwal and Jeffrey Vitter in 1988. The external memory model is related to the cache-oblivious model, but algorithms in the external memory model may know both the block size and the cache size. For this reason, the model is sometimes referred to as the cache-aware model. The model consists of a processor with an internal memory or cache of size M, connected to an unbounded external memory. Both the internal and external memory are divided into blocks of size B. One input/output or memory transfer operation consists of moving a block of B contiguous elements from external to internal memory, and the running time of an algorithm is determined by the number of these input/output operations. == Algorithms == Algorithms in the external memory model take advantage of the fact that retrieving one object from external memory retrieves an entire block of size B. This property is sometimes referred to as locality. Searching for an element among N objects is possible in the external memory model using a B-tree with branching factor B. Using a B-tree, searching, insertion, and deletion can be achieved in O ( log B N ) {\displaystyle O(\log _{B}N)} time (in Big O notation). Information theoretically, this is the minimum running time possible for these operations, so using a B-tree is asymptotically optimal. External sorting is sorting in an external memory setting. External sorting can be done via distribution sort, which is similar to quicksort, or via a M B {\displaystyle {\tfrac {M}{B}}} -way merge sort. Both variants achieve the asymptotically optimal runtime of O ( N B log M B N B ) {\displaystyle O\left({\frac {N}{B}}\log _{\frac {M}{B}}{\frac {N}{B}}\right)} to sort N objects. This bound also applies to the fast Fourier transform in the external memory model. The permutation problem is to rearrange N elements into a specific permutation. This can either be done either by sorting, which requires the above sorting runtime, or inserting each element in order and ignoring the benefit of locality. Thus, permutation can be done in O ( min ( N , N B log M B N B ) ) {\displaystyle O\left(\min \left(N,{\frac {N}{B}}\log _{\frac {M}{B}}{\frac {N}{B}}\right)\right)} time. == Applications == The external memory model captures the memory hierarchy, which is not modeled in other common models used in analyzing data structures, such as the random-access machine, and is useful for proving lower bounds for data structures. The model is also useful for analyzing algorithms that work on datasets too big to fit in internal memory. A typical example is geographic information systems, especially digital elevation models, where the full data set easily exceeds several gigabytes or even terabytes of data. This methodology extends beyond general purpose CPUs and also includes GPU computing as well as classical digital signal processing. In general-purpose computing on graphics processing units (GPGPU), powerful graphics cards (GPUs) with little memory (compared with the more familiar system memory, which is most often referred to simply as RAM) are utilized with relatively slow CPU-to-GPU memory transfer (when compared with computation bandwidth). == History == An early use of the term "out-of-core" as an adjective is in 1962 in reference to devices that are other than the core memory of an IBM 360. An early use of the term "out-of-core" with respect to algorithms appears in 1971.