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Build failing because of deprecation #107

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shntnu opened this issue Jan 16, 2019 · 4 comments
Closed

Build failing because of deprecation #107

shntnu opened this issue Jan 16, 2019 · 4 comments
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@shntnu
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shntnu commented Jan 16, 2019

https://docs.pytest.org/en/latest/deprecations.html#calling-fixtures-directly

e.g.

______________________ ERROR at setup of test_seed[htqc] _______________________
Fixture "htqc" called directly. Fixtures are not meant to be called directly,
but are created automatically when test functions request them as parameters.
See https://docs.pytest.org/en/latest/fixture.html for more information about fixtures, and
https://docs.pytest.org/en/latest/deprecations.html#calling-fixtures-directly about how to update your code.
@shntnu shntnu added the Bug label Jan 16, 2019
@gwaybio
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gwaybio commented Jul 8, 2019

it also looks like the cytominer-database build is failing because of an unmaintained dependency odo (see blaze/odo#619)''

This issue is also described in #69 and is the result of odo using pandas.tslib.

The future of this project requires us to seek an alternative to odo!

@gwaybio
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gwaybio commented Jul 8, 2019

a quick search comes up with d6tstack, but I will continue searching for alternatives

@gwaybio
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gwaybio commented Jul 9, 2019

see #108 - working around odo with pandas and sqlalchemy seems to be a promising route

@gwaybio
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gwaybio commented Jul 9, 2019

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