I can´t to install SQuiRE in conda

[ivfengel]

Hello!

I need to install SQuiRE in conda. I follow the instructions as it comes in github: https://github.com/wyang17/SQuIRE. However, the terminal returns the following:

Looking for: ['squire']

bioconda/linux-64 Using cache bioconda/noarch Using cache conda-forge/linux-64 Using cache conda-forge/noarch Using cache pkgs/main/linux-64 Using cache pkgs/main/noarch Using cache pkgs/r/linux-64 Using cache pkgs/r/noarch Using cache

Encountered problems while solving:

• nothing provides icu 54.* needed by r-base-3.4.1-0

I tried removing the version of icu it installs (icu 58.2) and installing icu 54, but once again it can't find it. I also tried installing all dependencies by hand and then installing SQuiRE. However, it complains about some dependencies.... that I already have installed!!!!!

Searching for: ['squire']

bioconda/linux-64 Using cache bioconda/noarch Using cache conda-forge/linux-64 Using cache conda-forge/noarch Using cache pkgs/main/linux-64 Using cache pkgs/main/noarch Using cache pkgs/r/linux-64 Using cache pkgs/r/noarch Using cache

Anchored packages:

• python 2.7.15

Problems encountered when resolving:

• package samtools-1.1-h50ea8bc_8 requires libzlib >=1.2.13,<1.3.0a0, but none of the providers can be installed

But actually, the libzlib library >=1.2.13,<1.3.0a0 is already installed:

(squire) landeiralab@landeiralab-ws:~$ conda list Packages in environment at /home/landeiralab/miniconda3/envs/squire:

Name Version Build Channel libzlib 1.2.13 h166bdaf_4 conda-forge

I hope someone can help me.

Thanks!

[Rathodusk]

Got the same issue, hope someone can help, thanks!

[Rathodusk]

Hi, I think the problem comes with R3.4.1 and the way I solve this is by creating a conda environment and install R3.4.1 first before installing squire. Here's the code I used: mamba create -n squire mamba activate squire mamba install r-base=3.4.1 mamba install -c bioconda squire