fix data access issues
Browse files
NASA_OSDR.py
CHANGED
@@ -97,26 +97,37 @@ class NasaOsdr(datasets.GeneratorBasedBuilder):
|
|
97 |
citation=_CITATION,
|
98 |
)
|
99 |
|
|
|
|
|
|
|
|
|
100 |
def _split_generators(self, dl_manager):
|
101 |
-
|
102 |
-
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
103 |
return [
|
104 |
datasets.SplitGenerator(
|
105 |
name=datasets.Split.TRAIN,
|
106 |
gen_kwargs={
|
107 |
-
"
|
108 |
-
"
|
109 |
},
|
110 |
),
|
111 |
]
|
112 |
|
113 |
-
def _generate_examples(self,
|
114 |
-
assays = os.path.join(dataset_root, "assays.csv")
|
115 |
-
samples = os.path.join(dataset_root, "samples.csv")
|
116 |
# there can be other metadata tables merged
|
117 |
|
118 |
-
assays_df = pd.read_csv(
|
119 |
-
samples_df = pd.read_csv(
|
120 |
|
121 |
for (idx, assay_row), (_, sample_row) in zip(assays_df.iterrows(), samples_df.iterrows()):
|
122 |
_item = {**assay_row.to_dict()}
|
|
|
97 |
citation=_CITATION,
|
98 |
)
|
99 |
|
100 |
+
_URL = "https://raw.githubusercontent.com/AnzorGozalishvili/NASA_ODSR_DATA/main"
|
101 |
+
_ASSAYS_FILE = "assays.csv"
|
102 |
+
_SAMPLES_FILE = "samples.csv"
|
103 |
+
|
104 |
def _split_generators(self, dl_manager):
|
105 |
+
downloaded_files = dl_manager.download_and_extract(
|
106 |
+
{
|
107 |
+
"train": {
|
108 |
+
"assays": os.path.join(self._URL, self._ASSAYS_FILE),
|
109 |
+
"samples": os.path.join(self._URL, self._ASSAYS_FILE)
|
110 |
+
},
|
111 |
+
}
|
112 |
+
)
|
113 |
+
|
114 |
return [
|
115 |
datasets.SplitGenerator(
|
116 |
name=datasets.Split.TRAIN,
|
117 |
gen_kwargs={
|
118 |
+
"assays_file": downloaded_files['train']['assays'],
|
119 |
+
"samples_file": downloaded_files['train']['samples'],
|
120 |
},
|
121 |
),
|
122 |
]
|
123 |
|
124 |
+
def _generate_examples(self, assays_file: str, samples_file):
|
125 |
+
# assays = os.path.join(dataset_root, "assays.csv")
|
126 |
+
# samples = os.path.join(dataset_root, "samples.csv")
|
127 |
# there can be other metadata tables merged
|
128 |
|
129 |
+
assays_df = pd.read_csv(assays_file)
|
130 |
+
samples_df = pd.read_csv(samples_file)
|
131 |
|
132 |
for (idx, assay_row), (_, sample_row) in zip(assays_df.iterrows(), samples_df.iterrows()):
|
133 |
_item = {**assay_row.to_dict()}
|
tests/{test_iliauni_icc_georgian_ocr.py → test_nasa_osdr.py}
RENAMED
@@ -33,7 +33,7 @@ def test_inherit_generator_base_builder_works():
|
|
33 |
|
34 |
def test_generate_examples():
|
35 |
dataset = NasaOsdr()
|
36 |
-
train_data = dataset._generate_examples(
|
37 |
idx, sample = next(iter(train_data))
|
38 |
print(idx, sample.keys())
|
39 |
|
|
|
33 |
|
34 |
def test_generate_examples():
|
35 |
dataset = NasaOsdr()
|
36 |
+
train_data = dataset._generate_examples(assays_file='data/assays.csv', samples_file='data/samples.csv')
|
37 |
idx, sample = next(iter(train_data))
|
38 |
print(idx, sample.keys())
|
39 |
|