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Dependencies to patch #2

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dpryan79 opened this issue Mar 14, 2021 · 2 comments
Open
2 tasks

Dependencies to patch #2

dpryan79 opened this issue Mar 14, 2021 · 2 comments

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@dpryan79
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dpryan79 commented Mar 14, 2021

The remaining dependencies let we need to patch are:

  • openssl
  • libdeflate

The goal is to patch older htslib and samtools releases.

@dpryan79
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dpryan79 commented Jan 3, 2022

This is now a package in bioconda-recipes. The openssl dependencies seem to have the following characteristics:

  • Some packages have no timestamp field. They presumably get a single openssl version
  • Those with a timestamp can have the openssl range set accordingly (need to determine when the pinning was changed, though we can use samtools/htslib to debug this.

It's currently unclear what libdeflate changes need to be made, that may be specific to OSX, since I think there were some .so/.dylib changes on that platform.

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dpryan79 commented Jan 3, 2022

Xref: bioconda/bioconda-recipes#17212

That will form the main issue for tracking this now.

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