Mercurial > repos > kls286 > chap_test_20230328
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planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
author | kls286 |
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date | Tue, 28 Mar 2023 18:58:42 +0000 |
parents | 649eb2ea2f49 |
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### Pipeline This package conains proof of concepts pipeline framework for workflow execution. It requires proper configuration of pipeline in terms classes, e.g. ``` # pipeline deifinition as sequence of objects pipeline: - reader.Reader - processor.Processor - fitter.Fitter - processor.Processor - writer.Writer - fitter.Fitter - writer.Writer # specific object parameters, e.g. our reader accepts fileName=data.csv reader.Reader: fileName: data.csv # specific object parameters, e.g. our writer accepts fileName=data.out writer.Writer: fileName: data.out ``` Then, you may execute this pipeline as following: ``` ./runner.py --config config.yaml ``` and, check the output in `data.out` file.