xcms on conda

[cbroeckl]

i am trying to setup on an HPC system using conda. I have tried R 4.4.1, as well as R 4.3.1, and in each case i cannot seem to get xcms to load for various reasons - usually due to some compatibility issue or another. i was wondering if there is a guide out there in the world to get one started down this path?

I am running conda 24.7.1 via miniconda3.

https://anaconda.org/bioconda/bioconductor-xcms - this site has multiple commands available for installation, which makes me think i am not the only one struggling with this.

BELOW IS CODE to install xcms, and the progress and output:

(r441) bash-4.4$ conda install bioconda::bioconductor-xcms Collecting package metadata (current_repodata.json): done Solving environment: unsuccessful initial attempt using frozen solve. Retrying with flexible solve. Solving environment: unsuccessful attempt using repodata from current_repodata.json, retrying with next repodata source. Collecting package metadata (repodata.json): done Solving environment: unsuccessful initial attempt using frozen solve. Retrying with flexible solve. Solving environment: - Found conflicts! Looking for incompatible packages. This can take several minutes. Press CTRL-C to abort. failed

UnsatisfiableError: The following specifications were found to be incompatible with each other:

Output in format: Requested package -> Available versions

Package libgcc-ng conflicts for: python=3.12 -> libgcc-ng[version='>=11.2.0'] python=3.12 -> bzip2[version='>=1.0.8,<2.0a0'] -> libgcc-ng[version='>=7.3.0|>=7.5.0']

Package zlib conflicts for: python=3.12 -> zlib[version='>=1.2.13,<1.3.0a0'] python=3.12 -> sqlite[version='>=3.45.3,<4.0a0'] -> zlib[version='>=1.2.12,<1.3.0a0|>=1.2.13,<2.0a0']

Package xz conflicts for: python=3.12 -> xz[version='>=5.4.2,<6.0a0|>=5.4.5,<6.0a0|>=5.4.6,<6.0a0'] bioconda::bioconductor-xcms -> r-base[version='>=4.3,<4.4.0a0'] -> xz[version='5.2.*|>=5.2.4,<6.0a0|>=5.2.5,<6.0a0|>=5.4.2,<6.0a0']

Package ncurses conflicts for: python=3.12 -> ncurses[version='>=6.4,<7.0a0'] python=3.12 -> readline[version='>=8.1.2,<9.0a0'] -> ncurses[version='>=6.1,<7.0a0|>=6.2,<7.0a0|>=6.3,<7.0a0']The following specifications were found to be incompatible with your system:

• feature:/linux-64::__glibc==2.28=0
• feature:|@/linux-64::__glibc==2.28=0
• bioconda::bioconductor-xcms -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']

Your installed version is: 2.28

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