Mercurial > repos > shellac > sam_consensus_v3
annotate env/lib/python3.9/site-packages/cwltool/tests/test_pathmapper.py @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author | shellac |
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date | Mon, 22 Mar 2021 18:12:50 +0000 |
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1 from typing import List, Tuple |
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2 |
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3 import pytest |
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4 |
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5 from cwltool.pathmapper import PathMapper |
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6 from cwltool.utils import CWLObjectType, normalizeFilesDirs |
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7 |
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8 |
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9 def test_subclass() -> None: |
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10 class SubPathMapper(PathMapper): |
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11 def __init__( |
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12 self, |
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13 referenced_files: List[CWLObjectType], |
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14 basedir: str, |
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15 stagedir: str, |
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16 new: str, |
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17 ): |
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18 super().__init__(referenced_files, basedir, stagedir) |
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19 self.new = new |
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20 |
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21 pathmap = SubPathMapper([], "", "", "new") |
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22 assert pathmap.new is not None, "new" |
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23 |
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24 |
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25 normalization_parameters = [ |
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26 ( |
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27 "strip trailing slashes", |
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28 {"class": "Directory", "location": "/foo/bar/"}, |
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29 {"class": "Directory", "location": "/foo/bar", "basename": "bar"}, |
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30 ), |
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31 ( |
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32 "file", |
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33 {"class": "File", "location": "file1.txt"}, |
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34 { |
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35 "class": "File", |
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36 "location": "file1.txt", |
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37 "basename": "file1.txt", |
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38 "nameext": ".txt", |
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39 "nameroot": "file1", |
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40 }, |
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41 ), |
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42 ( |
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43 "file with local uri", |
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44 {"class": "File", "location": "file:///foo/file1.txt"}, |
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45 { |
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46 "class": "File", |
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47 "location": "file:///foo/file1.txt", |
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48 "basename": "file1.txt", |
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49 "nameext": ".txt", |
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50 "nameroot": "file1", |
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51 }, |
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52 ), |
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53 ( |
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54 "file with http url", |
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55 {"class": "File", "location": "http://example.com/file1.txt"}, |
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56 { |
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57 "class": "File", |
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58 "location": "http://example.com/file1.txt", |
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59 "basename": "file1.txt", |
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60 "nameext": ".txt", |
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61 "nameroot": "file1", |
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62 }, |
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63 ), |
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64 ] |
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65 |
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66 |
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67 @pytest.mark.parametrize("name,file_dir,expected", normalization_parameters) |
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68 def test_normalizeFilesDirs( |
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69 name: str, file_dir: CWLObjectType, expected: CWLObjectType |
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70 ) -> None: |
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71 normalizeFilesDirs(file_dir) |
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72 assert file_dir == expected, name |
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73 |
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74 |
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75 # (filename, expected: (nameroot, nameext)) |
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76 basename_generation_parameters = [ |
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77 ("foo.bar", ("foo", ".bar")), |
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78 ("foo", ("foo", "")), |
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79 (".foo", (".foo", "")), |
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80 ("foo.", ("foo", ".")), |
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81 ("foo.bar.baz", ("foo.bar", ".baz")), |
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82 ] |
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83 |
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84 |
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85 @pytest.mark.parametrize("filename,expected", basename_generation_parameters) |
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86 def test_basename_field_generation(filename: str, expected: Tuple[str, str]) -> None: |
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87 nameroot, nameext = expected |
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88 expected2 = { |
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89 "class": "File", |
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90 "location": "/foo/" + filename, |
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91 "basename": filename, |
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92 "nameroot": nameroot, |
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93 "nameext": nameext, |
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94 } |
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95 |
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96 my_file = {"class": "File", "location": "/foo/" + filename} |
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97 |
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98 normalizeFilesDirs(my_file) |
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99 assert my_file == expected2 |