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concrete-stanford\nProvides a library that can take `Communication` objects, containing\n`Section`s, and annotate them using the Stanford CoreNLP\nframework. This produces `Communication` objects with `Tokenization`\nobjects, and optionally `EntityMention` and `Entity` objects.\n\n## Maven dependency\n\n```xml\n\u003cdependency\u003e\n  \u003cgroupId\u003eedu.jhu.hlt\u003c/groupId\u003e\n  \u003cartifactId\u003econcrete-stanford\u003c/artifactId\u003e\n  \u003cversion\u003ex.y.z\u003c/version\u003e\n\u003c/dependency\u003e\n```\n\nSee [pom.xml](pom.xml) for latest version.\n\n## Sectioned Communications are required\n\nAll examples assume the input files contain `Communication` objects\nwith, at minimum, `Section` objects underneath them and the `text`\nfield set. This library will not produce useful output if there are no\n`Section` objects underneath the `Communication` objects that are run.\nThere are two primary drivers --- one that processes Tokenized\n`Concrete` files, and one that does not.  Each has its own\nrequirements, described below.\n\n## Running over a directory of tar gz files with qsub\n\nIf you have a directory of `.tar.gz` files you want to run through stanford,\nsee [this script](src/main/scripts/batch-stanford.sh) on how to do that\nvia `qsub`.\n\nMake sure to build the project before running the script.\n\n## Quick start / API Usage\n\nLoad in a `Communication` with `Section`s with `TextSpan`s:\n```java\n// Sections are required for useful output\nCommunication withSections = ...;\n// You need to know what language the Communication is written in\nString language = \"en\";\n```\n\nThen create an annotator object and the language of the\n`Communication`. The following example shows the\n`AnnotateNonTokenizedConcrete` tool.\n\n```java\nPipelineLanguage lang = PipelineLanguage.getEnumeration(language);\nAnnotateNonTokenizedConcrete analytic = new AnnotateNonTokenizedConcrete(lang);\n```\n\nRun over the `Communication`:\n```java\n// Option 1: Wrap the Communication in an appropriate wrapper to ensure pre-reqs are handled\n// Below throws a MiscommunicationException if there are no Sections or there are Sentences\n// within the Sections.\nNonSentencedSectionedCommunication wc = new NonSentencedSectionedCommunication(withSections);\nStanfordPostNERCommunication annotated = annotatedWithStanford = analytic.annotate(wc);\n// Call 'getRoot()' to get the root, unwrapped Communication.\nCommunication unwrapped = annotated.getRoot();\n\n// Option 2: Do not wrap the Communication, and handle the possible exception.\n// Below will throw if the passed in Communication 'withSections' is invalid\n// for the analytic.\nStanfordPostNERCommunication annotated = annotatedWithStanford = analytic.annotate(withSections);\nCommunication unwrapped = annotated.getRoot();\n```\n\n`annotated` is a `Communication` with the output of the system.  This\nincludes sentences and tokenizations, and DEPENDING on the annotator,\nentity mentions and entities as well.\n\n`StanfordPostNERCommunication` is a utility wrapper that allows easier\naccess to members; see\n[here](src/main/java/edu/jhu/hlt/concrete/stanford/StanfordPostNERCommunication.java)\nfor the implementations.\n\n## Running as a command-line program\n\nYou can also run this tool as a command line program: both `AnnotateTokenizedConcrete` and\n`AnnotateNonTokenizedConcrete` can be run via the command line.\n\n* Argument 1: a path to a file on disk that is either a serialized Concrete `Communication` (ending with\n`.concrete`), a `.tar` file of serialized Concrete `Communication` objects, or a `.tar.gz` file\nwith serialized Concrete `Communication` objects. Recall that each `Communication` must have\n`Section` objects and must have `text` fields set.\n* Argument 2: a path that represents the desired output. The below are supported:\n\n| Input                                    | Result                                                           |\n| -----------------------------------------|------------------------------------------------------------------|\n| `.concrete` or `.comm` file              | Produces a single new `.concrete` or `.comm` file                |\n| `.tar` file with `Communication` objects | Produces a single `.tar` file with annotated `Communication`s    |\n| `.tar.gz` ...                            | Produces a single `.tar.gz` file with annotated `Communication`s |\n\n\nAlternatively, you can pass in a directory as output. If only a directory is\nused as output, the file name from the input will be used and extension mirrored\n(e.g., if `.tar` is input, `.tar.gz` will be output).\n\n* Argument 3 (optional): The language to use. Currently supported are `en` and `cn` (for English\nand Chinese). The default is `en`.\n\n## Known Annotators\n`concrete-stanford` can annotate text that is both pre-tokenized and text that is not.\n\nBy default, all annotators add named entity recognition, part-of-speech, lemmatization,\na constituency parse and three dependency parses (converted deterministically from the\nconstituency parse).\n\n### Non-Tokenized Input\nThe main annotator for non-tokenized input is `AnnotateNonTokenizedConcrete`.\nIt requires sectioned data, and each section **must** have valid `textSpans` set.\n\nIn addition to the above added annotations, `AnnotateNonTokenizedConcrete` will add entity\nmention identification and coreference.\n\n### Tokenized Input\n\nThe main annotator for non-tokenized input is `AnnotateTokenizedConcrete`.\nIt requires fully Tokenized data; each {`Section`,`Sentence`,`Token`} **must** have valid `textSpans` set.\n\n## Running the tool\n### Prepare\nReplace the environment variables in the code below with directories that represent your\ninput and output.\n\n### TLDR\nThe following should be compliant in any `sh`-like shell.\n\nBe sure to change `[en | cn]` to either `en` or `cn`,\ndepending on what language your documents are in.\n\n```sh\nexport CONC_STAN_INPUT_FILE=/path/to/.concrete/or/.tar/or/.tar.gz\nexport CONC_STAN_OUTPUT_DIR=/path/to/output/dir\nmvn clean compile assembly:single\njava -cp target/*.jar edu.jhu.hlt.concrete.stanford.AnnotateNonTokenizedConcrete \\\n$CONC_STAN_INPUT_FILE \\\n$CONC_STAN_OUTPUT_DIR \\\n[en | cn]\n```\n\n## Using Dockerized AnnotateCommunicationService\n\nThe Dockerfile stands up a server implementing Concrete's\n`AnnotateCommunicationService`.  An image built from this Dockerfile\nis available on Docker Hub as\n[hltcoe/concrete-stanford](https://hub.docker.com/r/hltcoe/concrete-stanford/),\nand can be pulled using:\n\n```sh\ndocker pull hltcoe/concrete-stanford\n```\n\nTo see what command line flags are supported, run:\n\n```sh\ndocker run hltcoe/concrete-stanford --help\n```\n\nAt minimum, you must specify a language (currently, either `en` or\n`cn`) using the `--language` flag, e.g.:\n\n```sh\ndocker run hltcoe/concrete-stanford --language en\n```\n\nThe concrete-stanford `AnnotateCommunicationService` requires\nCommunications that have been at least section-segmented.  See the\n\"Known Annotators\" section above for more details about the type of\ndata concrete-stanford expects.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fhltcoe%2Fconcrete-stanford","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fhltcoe%2Fconcrete-stanford","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fhltcoe%2Fconcrete-stanford/lists"}