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Add a recipe for PopIns2 #52782

Merged
merged 2 commits into from
Dec 13, 2024
Merged

Add a recipe for PopIns2 #52782

merged 2 commits into from
Dec 13, 2024

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martin-g
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Describe your pull request here

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@martin-g martin-g added aarch64 Related to adding linux-aarch64 support osx-arm64 Related to adding osx-arm64 support labels Dec 13, 2024
@martin-g martin-g force-pushed the popins2 branch 2 times, most recently from 3c9c333 to e61d16a Compare December 13, 2024 12:01
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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 popins2-0.13.0-hda5e58c_0.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/1ea31c5f-7cbe-42fb-bff7-122a53691cbf/artifacts/0/tmp/artifacts/packages <package name>
osx-arm64 sickle-trim-1.33-hba9b596_10.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/1ea31c5f-7cbe-42fb-bff7-122a53691cbf/artifacts/0/tmp/artifacts/packages <package name>
linux-aarch64 popins2-0.13.0-h1e84f2d_0.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/ca343f14-efba-43c4-872d-3c91d2657ff9/artifacts/0/tmp/artifacts/packages <package name>

@martin-g martin-g force-pushed the popins2 branch 7 times, most recently from e4ebc6b to dbb7555 Compare December 13, 2024 14:11
@martin-g
Add a recipe for PopIns2
58c1bae 
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
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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
linux-64 popins2-0.13.0-h077b44d_0.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-aarch64 popins2-0.13.0-h1e84f2d_0.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/1b63cad1-6e20-45d6-9651-d1926cf086fa/artifacts/0/tmp/artifacts/packages <package name>

Docker image(s) built:

Package Tag CI Install with docker
popins2 0.13.0--h077b44d_0 GitHub Actions
showImages are in the linux-64 zip file above.gzip -dc images/popins2---0.13.0--h077b44d_0.tar.gz | docker load

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mgrigorov in 🌐 euler-arm-22 in /tmp/popins22 via 🅒 test123 
❯ tar xvf popins2-0.13.0-h1e84f2d_0.tar.bz2                                                                                                                                                                (test123) 
info/files
info/run_exports.json
info/test/run_test.sh
info/hash_input.json
info/paths.json
info/recipe/build.sh
info/index.json
info/recipe/popins2.patch
info/recipe/meta.yaml.template
info/recipe/meta.yaml
info/recipe/conda_build_config.yaml
info/about.json
info/licenses/LICENSE
info/git
bin/popins2

mgrigorov in 🌐 euler-arm-22 in /tmp/popins22 via 🅒 test123 
❯ file bin/*                                                                                                                                                                                               (test123) 
bin/popins2: ELF 64-bit LSB pie executable, ARM aarch64, version 1 (GNU/Linux), dynamically linked, interpreter /lib/ld-linux-aarch64.so.1, for GNU/Linux 3.7.0, not stripped

mgrigorov in 🌐 euler-arm-22 in /tmp/popins22 via 🅒 test123 
❯ ./bin/popins2 --help                                                                                                                                                                                     (test123) 
Population-scale detection of non-reference sequence insertions using colored de Bruijn Graphs
================================================================

SYNOPSIS
    ./bin/popins2 COMMAND [OPTIONS]

COMMAND
    assemble            Filter, clip and assemble unmapped reads from a sample.
    merge               Generate supercontigs from a colored compacted de Bruijn Graph.
    multik              Multi-k framework for a colored compacted de Bruijn Graph.
    contigmap           Map unmapped reads to (super-)contigs.
    place-refalign      Find position of (super-)contigs by aligning contig ends to the reference genome.
    place-splitalign    Find position of (super-)contigs by split-read alignment (per sample).
    place-finish        Combine position found by split-read alignment from all samples.
    genotype            Determine genotypes of all insertions in a sample.

VERSION
    0.13.0-07b2936, Date: on 2022-11-30 14:36:07

Try `./bin/popins2 COMMAND --help' for more information on each command.

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 13, 2024
@mencian mencian merged commit 3f1de47 into bioconda:master Dec 13, 2024
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