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cortexpy: add aarch64/arm64 builds #52733

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merged 6 commits into from
Dec 18, 2024
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Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>
@martin-g martin-g added aarch64 Related to adding linux-aarch64 support osx-arm64 Related to adding osx-arm64 support labels Dec 11, 2024
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@BiocondaBot please fetch artifacts

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No artifacts found on the most recent builds. Either the builds failed, the artifacts have been removed due to age, or the recipe was blacklisted/skipped.

@martin-g martin-g closed this Dec 11, 2024
@martin-g martin-g reopened this Dec 11, 2024
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 12:38:12 BIOCONDA INFO Determining expected packages for recipes/cortexpy
Adding in variants from internal_defaults
Adding in variants from /opt/mambaforge/envs/bioconda/conda_build_config.yaml
Adding in variants from /opt/mambaforge/envs/bioconda/lib/python3.10/site-packages/bioconda_utils/bioconda_utils-conda_build_config.yaml
12:38:12 BIOCONDA INFO Nothing to be done for recipe recipes/cortexpy
12:38:12 BIOCONDA INFO BUILD SUMMARY: successfully built 0 of 1 recipes

For some reason nothing is being built ...
The recipe is not blacklisted.

@@ -11,7 +11,9 @@ source:

build:
skip: True # [py27 or py >= 39]
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we have skipped building for Python 3.8 I think

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@bgruening What do you mean ? Or rather, what do you suggest ?
The build fails for newer versions of Python ...

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I see. So, this is the reason why nothing is built.

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@BiocondaBot please fetch artifacts

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No artifacts found on the most recent builds. Either the builds failed, the artifacts have been removed due to age, or the recipe was blacklisted/skipped.

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@BiocondaBot please fetch artifacts

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Package(s) built are ready for inspection:

Arch Package Zip File / Repodata CI Instructions
osx-arm64 cortexpy-0.46.5-py38h1457a19_6.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/1d4d7a1b-1a6c-4edd-9f11-93db3be06741/artifacts/0/tmp/artifacts/packages <package name>
osx-arm64 cortexpy-0.46.5-py38h1f8763b_6.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/1d4d7a1b-1a6c-4edd-9f11-93db3be06741/artifacts/0/tmp/artifacts/packages <package name>
osx-arm64 cortexpy-0.46.5-py38h747c771_6.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/1d4d7a1b-1a6c-4edd-9f11-93db3be06741/artifacts/0/tmp/artifacts/packages <package name>
osx-arm64 cortexpy-0.46.5-py38h9f1bf47_6.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/1d4d7a1b-1a6c-4edd-9f11-93db3be06741/artifacts/0/tmp/artifacts/packages <package name>
linux-aarch64 cortexpy-0.46.5-py38h3757283_6.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/fbbf54a0-5217-4eaa-9897-44510fcf2c4b/artifacts/0/tmp/artifacts/packages <package name>
linux-aarch64 cortexpy-0.46.5-py38h42fd94b_6.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/fbbf54a0-5217-4eaa-9897-44510fcf2c4b/artifacts/0/tmp/artifacts/packages <package name>
linux-aarch64 cortexpy-0.46.5-py38hcb962fd_6.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/fbbf54a0-5217-4eaa-9897-44510fcf2c4b/artifacts/0/tmp/artifacts/packages <package name>
linux-aarch64 cortexpy-0.46.5-py38hcdb9e69_6.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/fbbf54a0-5217-4eaa-9897-44510fcf2c4b/artifacts/0/tmp/artifacts/packages <package name>
linux-64 cortexpy-0.46.5-py38h184ae93_6.tar.bz2 linux-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
linux-64 cortexpy-0.46.5-py38h2de1943_6.tar.bz2 linux-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
linux-64 cortexpy-0.46.5-py38he264feb_6.tar.bz2 linux-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
linux-64 cortexpy-0.46.5-py38hf731ba3_6.tar.bz2 linux-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
osx-64 cortexpy-0.46.5-py38h53e8915_6.tar.bz2 osx-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
osx-64 cortexpy-0.46.5-py38h8048cc9_6.tar.bz2 osx-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
osx-64 cortexpy-0.46.5-py38hee063d5_6.tar.bz2 osx-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
osx-64 cortexpy-0.46.5-py38hfc96be0_6.tar.bz2 osx-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>

Docker image(s) built:

Package Tag CI Install with docker
cortexpy 0.46.5--py38h184ae93_6 GitHub Actions
showImages are in the linux-64 zip file above.gzip -dc images/cortexpy---0.46.5--py38h184ae93_6.tar.gz | docker load
cortexpy 0.46.5--py38h2de1943_6 GitHub Actions
showImages are in the linux-64 zip file above.gzip -dc images/cortexpy---0.46.5--py38h2de1943_6.tar.gz | docker load
cortexpy 0.46.5--py38he264feb_6 GitHub Actions
showImages are in the linux-64 zip file above.gzip -dc images/cortexpy---0.46.5--py38he264feb_6.tar.gz | docker load
cortexpy 0.46.5--py38hf731ba3_6 GitHub Actions
showImages are in the linux-64 zip file above.gzip -dc images/cortexpy---0.46.5--py38hf731ba3_6.tar.gz | docker load

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mgrigorov in 🌐 euler-arm-22 in /tmp/cortexpy via 🅒 test123 took 5s 
❯ tar xvf cortexpy-0.46.5-py38hcdb9e69_6.tar.bz2                                                                                                                                                           (test123) 
info/test/test_time_dependencies.json
info/run_exports.json
info/test/run_test.sh
info/hash_input.json
info/has_prefix
info/test/run_test.py
info/index.json
info/recipe/meta.yaml.template
info/recipe/meta.yaml
info/recipe/conda_build_config.yaml
info/about.json
info/files
info/licenses/LICENSE.txt
info/paths.json
info/git
lib/python3.8/site-packages/cortexpy/graph/interactor_ext.html
lib/python3.8/site-packages/cortexpy/graph/parser/kmer_ext.html
lib/python3.8/site-packages/cortexpy/graph/parser/kmer_ext.cpython-38-aarch64-linux-gnu.so
lib/python3.8/site-packages/cortexpy-0.46.5.dist-info/direct_url.json
lib/python3.8/site-packages/cortexpy-0.46.5.dist-info/INSTALLER
lib/python3.8/site-packages/cortexpy-0.46.5.dist-info/WHEEL
lib/python3.8/site-packages/cortexpy-0.46.5.dist-info/METADATA
lib/python3.8/site-packages/cortexpy-0.46.5.dist-info/RECORD
lib/python3.8/site-packages/cortexpy-0.46.5.dist-info/REQUESTED
lib/python3.8/site-packages/cortexpy/command/exit_codes.yaml
lib/python3.8/site-packages/cortexpy/graph/parser/kmer_ext.pyx
lib/python3.8/site-packages/cortexpy/graph/parser/kmer_ext.cpp
lib/python3.8/site-packages/cortexpy-0.46.5.dist-info/top_level.txt
lib/python3.8/site-packages/cortexpy-0.46.5.dist-info/entry_points.txt
lib/python3.8/site-packages/cortexpy-0.46.5.dist-info/LICENSE.txt
lib/python3.8/site-packages/cortexpy/__init__.py
lib/python3.8/site-packages/cortexpy/test/__init__.py
lib/python3.8/site-packages/cortexpy/test/builder/__init__.py
lib/python3.8/site-packages/cortexpy/test/builder/graph/__init__.py
lib/python3.8/site-packages/cortexpy/command/__init__.py
lib/python3.8/site-packages/cortexpy/test/mock/graph.py
lib/python3.8/site-packages/cortexpy/test/constants.py
lib/python3.8/site-packages/cortexpy/test/expectation/__init__.py
lib/python3.8/site-packages/cortexpy/__main__.py
lib/python3.8/site-packages/cortexpy/constants.py
lib/python3.8/site-packages/cortexpy/test/builder/unitigs.py
lib/python3.8/site-packages/cortexpy/graph/parser/constants.py
lib/python3.8/site-packages/cortexpy/command/shared.py
lib/python3.8/site-packages/cortexpy/graph/traversal/utils.py
lib/python3.8/site-packages/cortexpy/test/expectation/links.py
lib/python3.8/site-packages/cortexpy/test/driver/graph/find_unitigs.py
lib/python3.8/site-packages/cortexpy/logging_config.py
lib/python3.8/site-packages/cortexpy/cli.py
lib/python3.8/site-packages/cortexpy/test/builder/graph/kmer.py
lib/python3.8/site-packages/cortexpy/test/builder/unitig_finder.py
lib/python3.8/site-packages/cortexpy/graph/parser/kmer_collection.py
lib/python3.8/site-packages/cortexpy/command/prune.py
lib/python3.8/site-packages/cortexpy/test/expectation/fasta.py
lib/python3.8/site-packages/cortexpy/graph/parser/random_access_collection.py
lib/python3.8/site-packages/cortexpy/utils.py
lib/python3.8/site-packages/cortexpy/graph/parser/streaming.py
lib/python3.8/site-packages/cortexpy/command/assemble.py
lib/python3.8/site-packages/cortexpy/test/driver/graph/traversal.py
lib/python3.8/site-packages/cortexpy/graph/serializer/serializer.py
lib/python3.8/site-packages/cortexpy/test/driver/graph/serializer.py
lib/python3.8/site-packages/cortexpy/graph/serializer/kmer.py
lib/python3.8/site-packages/cortexpy/test/expectation/unitig_graph.py
lib/python3.8/site-packages/cortexpy/test/expectation/kmer.py
lib/python3.8/site-packages/cortexpy/test/expectation/graph.py
lib/python3.8/site-packages/cortexpy/command/view.py
lib/python3.8/site-packages/cortexpy/test/builder/graph/graph.py
lib/python3.8/site-packages/cortexpy/test/builder/mccortex.py
lib/python3.8/site-packages/cortexpy/test/builder/graph/body.py
lib/python3.8/site-packages/cortexpy/command/subgraph.py
lib/python3.8/site-packages/cortexpy/test/expectation/json.py
lib/python3.8/site-packages/cortexpy/graph/contig_retriever.py
lib/python3.8/site-packages/cortexpy/test/runner.py
lib/python3.8/site-packages/cortexpy/test/builder/graph/header.py
lib/python3.8/site-packages/cortexpy/edge_set.py
lib/python3.8/site-packages/cortexpy/command/traverse.py
lib/python3.8/site-packages/cortexpy/test/builder/graph/cortex.py
lib/python3.8/site-packages/cortexpy/graph/traversal/branch.py
lib/python3.8/site-packages/cortexpy/graph/parser/header.py
lib/python3.8/site-packages/cortexpy/graph/parser/random_access.py
lib/python3.8/site-packages/cortexpy/links.py
lib/python3.8/site-packages/cortexpy/graph/traversal/engine.py
lib/python3.8/site-packages/cortexpy/test/driver/command.py
lib/python3.8/site-packages/cortexpy/graph/serializer/unitig.py
lib/python3.8/site-packages/cortexpy/graph/interactor.py
lib/python3.8/site-packages/cortexpy/graph/parser/kmer.py
lib/python3.8/site-packages/cortexpy/tesserae.py
lib/python3.8/site-packages/cortexpy/graph/cortex.py
lib/python3.8/site-packages/cortexpy/graph/serializer/__init__.py
lib/python3.8/site-packages/cortexpy/graph/__init__.py
lib/python3.8/site-packages/cortexpy/test/driver/graph/__init__.py
lib/python3.8/site-packages/cortexpy/graph/traversal/__init__.py
lib/python3.8/site-packages/cortexpy/graph/parser/__init__.py
lib/python3.8/site-packages/cortexpy/test/driver/__init__.py
lib/python3.8/site-packages/__init__.py
lib/python3.8/site-packages/cortexpy/test/mock/__init__.py
lib/python3.8/site-packages/__pycache__/__init__.cpython-38.pyc
lib/python3.8/site-packages/cortexpy/graph/__pycache__/__init__.cpython-38.pyc
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bin/cortexpy

mgrigorov in 🌐 euler-arm-22 in /tmp/cortexpy via 🅒 test123 
❯ file bin/* lib/python*/site-packages/*/*.so                                                                                                                                                              (test123) 

mgrigorov in 🌐 euler-arm-22 in /tmp/cortexpy via 🅒 test123 
❯ file bin/* lib/python*/site-packages/**/*.so                                                                                                                                                             (test123) 
bin/cortexpy:                                                                               a /opt/conda/conda-bld/cortexpy_1733990812062/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placeh script, ASCII text executable
lib/python3.8/site-packages/cortexpy/graph/parser/kmer_ext.cpython-38-aarch64-linux-gnu.so: ELF 64-bit LSB shared object, ARM aarch64, version 1 (SYSV), dynamically linked, with debug_info, not stripped

LGTM!

@martin-g
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@BiocondaBot please add label

@BiocondaBot BiocondaBot added the please review & merge set to ask for merge label Dec 12, 2024
@mencian
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mencian commented Dec 18, 2024

@BiocondaBot please fetch artifacts

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Package(s) built are ready for inspection:

Arch Package Zip File / Repodata CI Instructions
linux-64 cortexpy-0.46.5-py38h9948957_6.tar.bz2 linux-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
osx-64 cortexpy-0.46.5-py38h5fa12a8_6.tar.bz2 osx-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
osx-arm64 cortexpy-0.46.5-py38h4675bf2_6.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/8b3a2ad1-e6ca-45f5-a838-db38596acca7/artifacts/0/tmp/artifacts/packages <package name>
linux-aarch64 cortexpy-0.46.5-py38h163da20_6.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/741011c2-80d4-4297-86be-a761be38a1e4/artifacts/0/tmp/artifacts/packages <package name>

Docker image(s) built:

Package Tag CI Install with docker
cortexpy 0.46.5--py38h9948957_6 GitHub Actions
showImages are in the linux-64 zip file above.gzip -dc images/cortexpy---0.46.5--py38h9948957_6.tar.gz | docker load

@mencian mencian merged commit 4c807e2 into bioconda:master Dec 18, 2024
5 checks passed
@martin-g martin-g deleted the aarch64-cortexpy branch December 18, 2024 07:37
@martin-g
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Thank you, @mencian !

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4 participants