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I am trying to prepare a conda build for a package and the package depends on samtools libraries. The user needs to copy the library files into the package directory for compilation. Here is the installation instruction of the package.

ln -s <path_to_samtools_dir> samtools
make OMP=no # without parallel support

I am not sure how to configure that part for conda-build.

The requirements section of my meta.yml file

requirements:
  build:
    - {{ compiler('c') }}
    - samtools
    - htslib
    - cmake
    - readline
    - zlib
  Host:
    - samtools
    - htslib
  run:
    - samtools
    - htslib
    - python
    - numpy >=1.16
    - root
    - matplotlib
    - readline
Arijit Panda
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  • Is there any way to specify a separate directory for the `samtools`? You could specify the `ln` command as part of your `build.sh` but that's not super reproducible and might be a little fragile. – darthbith Mar 17 '20 at 16:59
  • Using `build.sh`, I can copy/soft link the `samtools` library files. But how to find the samtools library files in conda env? – Arijit Panda Mar 17 '20 at 19:49
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    They will be installed in `$PREFIX/lib`, I think. See here: https://docs.conda.io/projects/conda-build/en/latest/user-guide/environment-variables.html – darthbith Mar 18 '20 at 00:15

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