NLP pipeline software using common workflow language
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README.rst

NLP Pipeline

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nlppln is a python package for creating NLP pipelines using Common Workflow Language (CWL). It provides steps for (generic) NLP functionality, such as tokenization, lemmatization, and part of speech tagging, and helps users to construct workflows from these steps.

A text processing step consist of a (Python) command line tool and a CWL specification to use this tool. Most tools provided by nppln wrap existing NLP functionality. The command line tools are made with Click, a Python package for creating command line interfaces.

To create a workflow, you have to write a Python script:

from nlppln import WorkflowGenerator

with WorkflowGenerator() as wf:
  txt_dir = wf.add_input(txt_dir='Directory')

  frogout = wf.frog_dir(in_dir=txt_dir)
  saf = wf.frog_to_saf(in_files=frogout)
  ner_stats = wf.save_ner_data(in_files=saf)
  new_saf = wf.replace_ner(metadata=ner_stats, in_files=saf)
  txt = wf.saf_to_txt(in_files=new_saf)

  wf.add_outputs(ner_stats=ner_stats, txt=txt)

  wf.save('anonymize.cwl')

The resulting workflow can be run using a CWL runner, such as cwltool:

cwltool anonymize.cwl --txt_dir /path/to/directory/with/txt/files/

For creating new (e.g., project specific) NLP functionality, you can use nlppln-gen to generate boilerplate (i.e., empty) command line tools and CWL specifications.

The full documentation can be found on Read the Docs.

Installation

Install nlppln using pip:

pip install nlppln

Please check the installation guidelines for additional required software.

License

Copyright (c) 2016-2018, Netherlands eScience Center, University of Twente

Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at

http://www.apache.org/licenses/LICENSE-2.0

Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.