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Add all Python packages (versioned!) to Dockerfile #1008

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merged 17 commits into from
Apr 16, 2021
Merged

Add all Python packages (versioned!) to Dockerfile #1008

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272c453
Add requirements.txt for reference
jashapiro Apr 15, 2021
72c47de
consolidate python and add version numbers for everything
jashapiro Apr 15, 2021
d2b2eb9
Add back setuptools at start
jashapiro Apr 15, 2021
fcdd992
Add Cython to starting set
jashapiro Apr 15, 2021
21007be
Add back EPN subtyping back to CI
jashapiro Apr 15, 2021
3e289aa
print python package list for debugging
jashapiro Apr 15, 2021
a55ce87
No really, use the right packages
jashapiro Apr 15, 2021
f458ab0
Test a python check script
jashapiro Apr 15, 2021
8a221e6
Test making the python package test fail
jashapiro Apr 15, 2021
32ddb28
Revert "Test making the python package test fail"
jashapiro Apr 15, 2021
db968be
Make the python package test better
jashapiro Apr 15, 2021
c8221c0
Add one more error check
jashapiro Apr 16, 2021
2838d3a
Fix filename second time
jashapiro Apr 16, 2021
76444bf
Use tmp and clean up
jashapiro Apr 16, 2021
ba98875
One more failure check
jashapiro Apr 16, 2021
c0a32a7
Revert test & add docs
jashapiro Apr 16, 2021
4d3fc46
One more doc comment
jashapiro Apr 16, 2021
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print python package list for debugging
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@jashapiro
jashapiro committed Apr 15, 2021
commit 3e289aad040d0076103fd1006dfccfbf11fdcb61
4 changes: 4 additions & 0 deletions .circleci/config.yml
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Expand Up @@ -16,6 +16,10 @@ jobs:
name: List Data Directory Contents
command: ./scripts/run_in_ci.sh ls data/testing

- run:
name: Check python packages
command: ./scripts/run_in_ci.sh pip3 freeze

- run:
name: High level histology grouping for plot labels
command: ./scripts/run_in_ci.sh Rscript -e "rmarkdown::render('figures/mapping-histology-labels.Rmd', clean = TRUE)"
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