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merenlab / anvio

An analysis and visualization platform for 'omics data
http://merenlab.org/software/anvio
GNU General Public License v3.0
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anvio-8:mamba installation doesn’t work in the anaconda environment #2203

Closed haihao999 closed 8 months ago

haihao999 commented 8 months ago

Hi, I don’t know why there is no problem in the miniconda environment, but such an error occurs in the anaconda environment

mamba install -y python=3.10 \

    sqlite prodigal idba mcl muscle=3.8.1551 famsa hmmer diamond \
    blast megahit spades bowtie2 bwa graphviz "samtools>=1.9" \
    trimal iqtree trnascan-se fasttree vmatch r-base r-tidyverse \
    r-optparse r-stringi r-magrittr bioconductor-qvalue meme ghostscript

Looking for: ['python=3.10', 'sqlite', 'prodigal', 'idba', 'mcl', 'muscle=3.8.1551', 'famsa', 'hmmer', 'diamond', 'blast', 'megahit', 'spades', 'bowtie2', 'bwa', 'graphviz', "samtools[version='>=1.9']", 'trimal', 'iqtree', 'trnascan-se', 'fasttree', 'vmatch', 'r-base', 'r-tidyverse', 'r-optparse', 'r-stringi', 'r-magrittr', 'bioconductor-qvalue', 'meme', 'ghostscript']

bioconda/linux-64 (check zst) Checked 0.5s bioconda/noarch (check zst) Checked 0.2s pkgs/main/linux-64 (check zst) Checked 0.6s pkgs/main/noarch (check zst) Checked 0.1s pkgs/free/linux-64 (check zst) Checked 0.3s pkgs/free/noarch (check zst) Checked 0.3s pkgs/r/linux-64 (check zst) Checked 0.1s pkgs/r/noarch (check zst) Checked 0.1s au-eoed/linux-64 (check zst) Checked 0.4s au-eoed/noarch (check zst) Checked 0.4s r/linux-64 (check zst) Checked 0.6s r/noarch (check zst) Checked 0.4s ursky/linux-64 (check zst) Checked 0.4s ursky/noarch (check zst) Checked 0.4s /linux-64/repodata.json.zst": Malformed input to a URL function

meren commented 8 months ago

Hi @haihao999,

We haven't tested anvi'o installation in Anaconda environment and we don't have the throughput to investigate installation issues that arise during attempts that don't follow online installation instructions word-by-word.

Best wishes,