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Update pytximport to 0.9.0 #51049

Merged
merged 1 commit into from
Sep 30, 2024
Merged

Update pytximport to 0.9.0 #51049

merged 1 commit into from
Sep 30, 2024

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@BiocondaBot BiocondaBot commented Sep 30, 2024

Update pytximport: 0.8.00.9.0

install with bioconda Conda

Info Link or Description
Recipe recipes/pytximport (click to view/edit other files)
Summary pytximport - gene count estimation from alignment-free quantification
Home https://pytximport.readthedocs.io/en/latest/start.html
Releases https://pypi.org/pypi/pytximport/json
Recipe Maintainer(s) @maltekuehl

This pull request was automatically generated (see docs).

@BiocondaBot BiocondaBot added autobump Automatic Version Update new version labels Sep 30, 2024
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coderabbitai bot commented Sep 30, 2024

📝 Walkthrough

Walkthrough

The pull request updates the meta.yaml file for the pytximport package by incrementing the version from 0.8.0 to 0.9.0. Additionally, the SHA256 checksum for the source tarball has been modified to reflect the new version. The build script and the requirements sections for both host and run remain unchanged, maintaining the overall structure of the file.

Changes

File Change Summary
recipes/pytximport/meta.yaml - Version updated from 0.8.0 to 0.9.0
- SHA256 checksum updated from 18bdf4f...3840b to f311705...3c95

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Actionable comments posted: 0

🧹 Outside diff range and nitpick comments (1)
recipes/pytximport/meta.yaml (1)

Dependencies have changed and need to be updated in the requirements section.

  • Updated version specifications for the following dependencies:

    • anndata >=0.8.0
    • click >=8.0.0, <9
    • flox >=0.9.0, <0.10.0
    • h5py >=3.0.0, <4
    • numpy >=1.19.0, <3
    • pandas >=2.2.0, <3
    • pybiomart ==0.2.0
    • tqdm >=4.0.0, <5
    • xarray >=2024.0.0
  • Please update the requirements section in recipes/pytximport/meta.yaml to reflect these changes.

🔗 Analysis chain

Line range hint 1-67: Verify dependencies and confirm build number reset.

  1. The build number has been correctly reset to 0 for the new version.
  2. Please verify if there are any new dependencies or version changes required for pytximport 0.9.0. You may need to check the package's setup file or release notes for this information.

To check for any changes in dependencies, you can run the following script:

This script will show the dependencies for both versions and highlight any differences. If there are changes, please update the requirements section accordingly.

🏁 Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Description: Compare dependencies between pytximport 0.8.0 and 0.9.0

# Function to extract dependencies
get_dependencies() {
    version=$1
    curl -sL https://pypi.org/pypi/pytximport/$version/json | jq -r '.info.requires_dist[]' | sort
}

echo "Dependencies for pytximport 0.8.0:"
get_dependencies 0.8.0

echo -e "\nDependencies for pytximport 0.9.0:"
get_dependencies 0.9.0

echo -e "\nDiff between 0.8.0 and 0.9.0 dependencies:"
diff <(get_dependencies 0.8.0) <(get_dependencies 0.9.0) || true

Length of output: 2754


Script:

#!/bin/bash
# Description: Extract and compare dependencies between pytximport 0.8.0 and 0.9.0

# Function to extract dependencies
get_dependencies() {
    version=$1
    curl -sL https://pypi.org/pypi/pytximport/${version}/json | jq -r '.info.requires_dist[]' | sort > dependencies_${version}.txt
}

echo "Extracting dependencies for pytximport 0.8.0..."
get_dependencies 0.8.0

echo "Extracting dependencies for pytximport 0.9.0..."
get_dependencies 0.9.0

echo "Comparing dependencies between versions 0.8.0 and 0.9.0:"
diff dependencies_0.8.0.txt dependencies_0.9.0.txt || true

echo "Cleanup temporary files."
rm dependencies_0.8.0.txt dependencies_0.9.0.txt

Length of output: 1255

🧰 Tools
🪛 yamllint

[error] 1-1: syntax error: found character '%' that cannot start any token

(syntax)

📜 Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Files that changed from the base of the PR and between 57e8031 and ef06902.

📒 Files selected for processing (1)
  • recipes/pytximport/meta.yaml (1 hunks)
🔇 Additional comments (2)
recipes/pytximport/meta.yaml (2)

2-2: Version update looks good.

The version has been correctly updated to 0.9.0, which aligns with the PR objective.


10-10: SHA256 checksum update looks valid.

The SHA256 checksum has been updated, which is necessary for the new version. However, it's crucial to verify that this checksum corresponds to the correct source package for version 0.9.0.

To verify the checksum, you can run the following script:

#!/bin/bash
# Description: Verify the SHA256 checksum of the pytximport 0.9.0 source package

# Download the source package
curl -L https://pypi.io/packages/source/p/pytximport/pytximport-0.9.0.tar.gz -o pytximport-0.9.0.tar.gz

# Calculate the SHA256 checksum
calculated_checksum=$(sha256sum pytximport-0.9.0.tar.gz | awk '{print $1}')

# Compare with the checksum in the recipe
expected_checksum="f311705a71faa095d7e65de63235df55c805fbab4fbea10010fdae11014b3c95"

if [ "$calculated_checksum" = "$expected_checksum" ]; then
    echo "Checksum verification passed."
else
    echo "Checksum verification failed."
    echo "Calculated: $calculated_checksum"
    echo "Expected:   $expected_checksum"
fi

# Clean up
rm pytximport-0.9.0.tar.gz

@mencian mencian merged commit 37e8a56 into master Sep 30, 2024
7 checks passed
@mencian mencian deleted the bump/pytximport branch September 30, 2024 15:24
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