Mercurial > repos > shellac > guppy_basecaller

annotate env/lib/python3.7/site-packages/bioblend/galaxy/tools/inputs.py @ 0:26e78fe6e8c4 draft

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"planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
author shellac
date Sat, 02 May 2020 07:14:21 -0400
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1 import six
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2
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3
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4 class InputsBuilder(object):
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5 """
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6 """
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7
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8 def __init__(self):
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9 self._input_dict = {}
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10
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11 def set(self, name, input):
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12 self._input_dict[name] = input
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13 return self
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14
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15 def set_param(self, name, value):
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16 return self.set(name, param(value=value))
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17
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18 def set_dataset_param(self, name, value, src="hda"):
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19 return self.set(name, dataset(value, src=src))
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20
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21 def to_dict(self):
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22 values = {}
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23 for key, value in self.flat_iter():
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24 if hasattr(value, "value"):
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25 value = value.value
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26 values[key] = value
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27 return values
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28
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29 def flat_iter(self, prefix=None):
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30 for key, value in six.iteritems(self._input_dict):
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31 effective_key = key if prefix is None else "%s|%s" % (prefix, key)
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32 if hasattr(value, "flat_iter"):
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33 for flattened_key, flattened_value in value.flat_iter(effective_key):
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34 yield flattened_key, flattened_value
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35 else:
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36 yield effective_key, value
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37
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38
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39 class RepeatBuilder(object):
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40
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41 def __init__(self):
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42 self._instances = []
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43
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44 def instance(self, inputs):
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45 self._instances.append(inputs)
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46 return self
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47
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48 def flat_iter(self, prefix=None):
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49 for index, instance in enumerate(self._instances):
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50 index_prefix = "%s_%d" % (prefix, index)
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51 for key, value in instance.flat_iter(index_prefix):
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52 yield key, value
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53
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54
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55 class Param(object):
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56
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57 def __init__(self, value):
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58 self.value = value
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60
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61 class DatasetParam(Param):
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62
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63 def __init__(self, value, src="hda"):
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64 if not isinstance(value, dict):
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65 value = dict(src=src, id=value)
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66 super(DatasetParam, self).__init__(value)
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67
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68
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69 inputs = InputsBuilder
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70 repeat = RepeatBuilder
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71 conditional = InputsBuilder
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72 param = Param
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73 dataset = DatasetParam
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74
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75 __all__ = ("inputs", "repeat", "conditional", "param")