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Update htslib to 1.19 #44774

Merged
merged 2 commits into from
Dec 12, 2023
Merged

Update htslib to 1.19 #44774

merged 2 commits into from
Dec 12, 2023

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Update htslib: 1.18 → 1.19

install with bioconda Conda

Info Link or Description
Recipe recipes/htslib (click to view/edit other files)
Summary C library for high-throughput sequencing data formats.
Home https://github.com/samtools/htslib
Releases https://github.com/samtools/htslib/releases
Author @samtools

This pull request was automatically generated (see docs).

@BiocondaBot BiocondaBot added autobump Automatic Version Update new version labels Dec 12, 2023
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Package(s) built on Azure are ready for inspection:

Arch Package Zip File
linux-64 htslib-1.19_8751c40c4f.tar.bz2 LinuxArtifacts
linux-64 htslib-1.19-h81da01d_0.tar.bz2 LinuxArtifacts
osx-64 htslib-1.19-h365c357_0.tar.bz2 OSXArtifacts

You may also use conda to install these after downloading and extracting the appropriate zip file. From the LinuxArtifacts or OSXArtifacts directories:

conda install -c ./packages <package name>

Docker image(s) built (images are in the LinuxArtifacts zip file above):

Package Tag Install with docker
htslib 1.19--h81da01d_0
showgzip -dc LinuxArtifacts/images/htslib:1.19--h81da01d_0.tar.gz | docker load

@jmarshall
Remove run requirements for shared libraries
20db309 
These will be inferred from the library dependencies, as appropriate.
In particular, this will omit the spurious zlib package dependency:
only libzlib is required.
@jmarshall jmarshall self-requested a review December 12, 2023 20:53
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Package(s) built on Azure are ready for inspection:

Arch Package Zip File
linux-64 htslib-1.19_8751c40c4f.tar.bz2 LinuxArtifacts
linux-64 htslib-1.19-h81da01d_0.tar.bz2 LinuxArtifacts
osx-64 htslib-1.19-h365c357_0.tar.bz2 OSXArtifacts

You may also use conda to install these after downloading and extracting the appropriate zip file. From the LinuxArtifacts or OSXArtifacts directories:

conda install -c ./packages <package name>

Docker image(s) built (images are in the LinuxArtifacts zip file above):

Package Tag Install with docker
htslib 1.19--h81da01d_0
showgzip -dc LinuxArtifacts/images/htslib:1.19--h81da01d_0.tar.gz | docker load

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jmarshall commented Dec 12, 2023 •
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That appears to have removed the now-spurious zlib (as opposed to libzlib) dependency on Linux but not on macOS 🤷 — good enough for now!

[ETA: zlib is correctly omitted on both Linux and macOS in the final files, but did not appear to be so in the macOS preview artefact. All's well that ends well?]

@jmarshall jmarshall merged commit 4640146 into master Dec 12, 2023
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@jmarshall jmarshall deleted the bump/htslib branch December 12, 2023 22:12
@jmarshall jmarshall mentioned this pull request Dec 12, 2023
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This was referenced Jan 3, 2024
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