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prepare - work around anndata bug (#1260)

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* work around anndata bug 344

* fix accidental cut and paste error

* Use modified make_index_unique function

Temporarily copy code from https://github.com/theislab/anndata/pull/345
until the issue is resolved and released.

* Add notes and test for make_index_unique

* Lint fix

* Format python

Co-authored-by: Matt Weiden <538456+mweiden@users.noreply.github.com>
This commit is contained in:
Bruce Martin
2020-03-22 12:27:59 -07:00
committed by GitHub
co-authored by Matt Weiden
parent db7a485796
commit d99b84ba09
7 changed files with 86 additions and 29 deletions
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server/test/test_cli_prepare.py
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import unittest
import pandas as pd
from server.cli.prepare import make_index_unique
class CLIPrepareTests(unittest.TestCase):
""" Test cases for CLI prepare logic """
def test_make_index_unique(self):
index = pd.Index(["SNORD113", "SNORD113", "SNORD113-1"])
result = make_index_unique(index)
expected = pd.Index(["SNORD113", "SNORD113-2", "SNORD113-1"])
self.assertTrue(all(left == right for left, right in zip(result.values, expected.values)))