Use filepath in github to ensure notebook runs in colab runs #253
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Codecov ReportAll modified and coverable lines are covered by tests ✅
Additional details and impacted files@@ Coverage Diff @@
## master #253 +/- ##
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Coverage 73.82% 73.82%
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Files 24 24
Lines 2048 2048
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Hits 1512 1512
Misses 536 536 ☔ View full report in Codecov by Sentry. |
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Actionable comments posted: 1
Review details
Configuration used: CodeRabbit UI
Review profile: CHILL
Files selected for processing (1)
- examples/smact_validity/Checking_smact_validity_of_GNoME.ipynb (2 hunks)
Additional comments not posted (2)
examples/smact_validity/Checking_smact_validity_of_GNoME.ipynb (2)
30-30: Update the installation command to use HTTPS for better security.
121-121: Switching to a raw GitHub URL for data loading is a good practice for ensuring the notebook works in environments like Google Colab.
| " !pip install git+git://github.com/WMD-group/SMACT.git --quiet\n", | ||
| "!pip install pandarallel --quiet" | ||
| " !pip install git+https://github.com/WMD-group/SMACT.git --quiet\n", | ||
| "!pip install pandarallel --quiet # Required for parallel processing" |
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Tip
Codebase Verification
Ensure pandarallel is installed only when necessary to optimize resource usage.
- The notebook
examples/smact_validity/Checking_smact_validity_of_GNoME.ipynbinstallspandarallelunconditionally. Consider adding logic to install it only if it's not already installed or based on specific conditions.
Analysis chain
Ensure pandarallel is installed only when necessary to optimize resource usage.
Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash
# Description: Check if pandarallel is conditionally installed based on environment.
# Test: Search for conditional installation logic for pandarallel.
rg --type python 'pandarallel' Checking_smact_validity_of_GNoME.ipynb
Length of output: 100
Script:
#!/bin/bash
# Description: Check if pandarallel is conditionally installed based on environment.
# Test: Search for conditional installation logic for pandarallel.
rg 'pandarallel' Checking_smact_validity_of_GNoME.ipynb
Length of output: 134
Script:
#!/bin/bash
# Description: Locate the notebook file and check if pandarallel is conditionally installed based on environment.
# Step 1: Locate the notebook file.
notebook_file=$(fd Checking_smact_validity_of_GNoME.ipynb)
# Step 2: Search for conditional installation logic for pandarallel in the located notebook file.
if [ -n "$notebook_file" ]; then
rg 'pandarallel' "$notebook_file"
else
echo "Notebook file not found."
fi
Length of output: 677
Update validity notebook
Description
Type of change
How Has This Been Tested?
N/A
Reviewers
N/A
Checklist:
Summary by CodeRabbit
pandarallelto enable parallel processing.