Mercurial > repos > kls286 > chap_test_20230328
annotate build/lib/CHAP/models/basemodel.py @ 1:1016ae8f31ec draft
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
| author | kls286 | 
|---|---|
| date | Tue, 28 Mar 2023 15:16:40 +0000 | 
| parents | cbbe42422d56 | 
| children | 
| rev | line source | 
|---|---|
| 0 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 1 #!/usr/bin/env python | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 2 #-*- coding: utf-8 -*- | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 3 #pylint: disable= | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 4 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 5 File : basemodel.py | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 6 Author : Valentin Kuznetsov <vkuznet AT gmail dot com> | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 7 Description: BaseModel module | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 8 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 9 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 10 # system modules | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 11 import logging | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 12 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 13 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 14 class BaseModel(): | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 15 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 16 BaseModel docstring | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 17 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 18 def __init__(self, filename=None, **kwds): | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 19 self.logger = logging.getLogger(__name__) | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 20 self.construct(filename, **kwds) | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 21 self.map = dict(name=__name__) | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 22 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 23 def construct(self, filename=None, **kwds): | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 24 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 25 construct from CLI object | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 26 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 27 :param filename: input file name | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 28 :param **kwds: named arguments | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 29 :return: Basemodel object | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 30 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 31 print('construct API calls: ', end='') | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 32 if filename and filename.endswith('yaml'): | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 33 self.construct_from_yaml(filename) | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 34 elif filename and filename != '': | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 35 self.construct_from_file(filename) | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 36 else: | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 37 self.construct_from_config(**kwds) | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 38 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 39 @classmethod | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 40 def construct_from_config(cls, **config): | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 41 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 42 construct from config object | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 43 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 44 :param **config: named arguments | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 45 :return: Basemodel object | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 46 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 47 print(f'construct_from_config: {config}') | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 48 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 49 @classmethod | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 50 def construct_from_yaml(cls, filename): | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 51 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 52 construct from CLI object | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 53 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 54 :param filename: input file name | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 55 :return: Basemodel object | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 56 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 57 print(f'construct_from_yaml: {filename}') | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 58 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 59 @classmethod | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 60 def construct_from_file(cls, filename): | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 61 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 62 construct from filename | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 63 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 64 :param filename: input file name | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 65 :return: Basemodel object | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 66 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 67 print(f'construct_from_file: {filename}') | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 68 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 69 def getMap(self): | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 70 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 71 return model map | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 72 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 73 :return: map object | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 74 """ | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 75 return self.map | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 76 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 77 | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 78 if __name__ == '__main__': | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 79 print('### should construct from file.yaml') | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 80 base = BaseModel('file.yaml') | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 81 print('### should construct from file.txt') | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 82 base = BaseModel('file.txt') | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 83 print('### should construct from config') | 
| 
cbbe42422d56
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
 kls286 parents: diff
changeset | 84 base = BaseModel(param='file.txt', arg='bla') | 
