##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD build --keep-empty-dirs --no-resave-data HiCool
###
##############################################################################
##############################################################################


* checking for file ‘HiCool/DESCRIPTION’ ... OK
* preparing ‘HiCool’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘HiCool.Rmd’ using rmarkdown
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /home/biocbuild/.cache/R/basilisk/1.16.0/HiCool/1.4.0/env

  added / updated specs:
    - python=3.7.12


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    ncurses-6.5                |       h0425590_0         903 KB  conda-forge
    ------------------------------------------------------------
                                           Total:         903 KB

The following NEW packages will be INSTALLED:

  _openmp_mutex      conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
  ca-certificates    conda-forge/linux-aarch64::ca-certificates-2024.2.2-hcefe29a_0
  ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-hba4e955_0
  libffi             conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
  libgcc-ng          conda-forge/linux-aarch64::libgcc-ng-13.2.0-he277a41_7
  libgomp            conda-forge/linux-aarch64::libgomp-13.2.0-he277a41_7
  libnsl             conda-forge/linux-aarch64::libnsl-2.0.1-h31becfc_0
  libsqlite          conda-forge/linux-aarch64::libsqlite-3.45.3-h194ca79_0
  libstdcxx-ng       conda-forge/linux-aarch64::libstdcxx-ng-13.2.0-h3f4de04_7
  libzlib            conda-forge/linux-aarch64::libzlib-1.2.13-h31becfc_5
  ncurses            conda-forge/linux-aarch64::ncurses-6.5-h0425590_0
  openssl            conda-forge/linux-aarch64::openssl-3.3.0-h31becfc_0
  pip                conda-forge/noarch::pip-24.0-pyhd8ed1ab_0
  python             conda-forge/linux-aarch64::python-3.7.12-h47f6e27_100_cpython
  readline           conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
  setuptools         conda-forge/noarch::setuptools-65.6.3-pyhd8ed1ab_0
  sqlite             conda-forge/linux-aarch64::sqlite-3.45.3-h3b3482f_0
  tk                 conda-forge/linux-aarch64::tk-8.6.13-h194ca79_0
  wheel              conda-forge/linux-aarch64::wheel-0.34.2-py37_0
  xz                 conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 24.4.0

Please update conda by running

    $ conda update -n base -c defaults conda



# All requested packages already installed.

Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.

PackagesNotFoundError: The following packages are not available from current channels:

  - samtools=1.16.1
  - bowtie2=2.5.0

Current channels:

  - https://conda.anaconda.org/conda-forge/linux-aarch64
  - https://conda.anaconda.org/conda-forge/noarch
  - https://conda.anaconda.org/bioconda/linux-aarch64
  - https://conda.anaconda.org/bioconda/noarch
  - https://repo.anaconda.com/pkgs/main/linux-aarch64
  - https://repo.anaconda.com/pkgs/main/noarch
  - https://repo.anaconda.com/pkgs/r/linux-aarch64
  - https://repo.anaconda.com/pkgs/r/noarch

To search for alternate channels that may provide the conda package you're
looking for, navigate to

    https://anaconda.org

and use the search bar at the top of the page.



Quitting from lines  at lines 71-80 [unnamed-chunk-3] (HiCool.Rmd)
Error: processing vignette 'HiCool.Rmd' failed with diagnostics:
one or more Python packages failed to install [error code 1]
--- failed re-building ‘HiCool.Rmd’

SUMMARY: processing the following file failed:
  ‘HiCool.Rmd’

Error: Vignette re-building failed.
Execution halted