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nanoporetech / pipeline-umi-amplicon

Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers
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conda create issues #2

Closed bhill-17 closed 3 years ago

bhill-17 commented 3 years ago

Hello I am having trouble with the line of code conda env create -f environment.yml Errors populate in Std output indicating that pip failed

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cjw85 commented 3 years ago

Hi @bhill-17,

The issues here stem from an inability to compile some dependencies of the medaka program. I have changed how medaka is installed into the conda environment which should allow the conda env create command to proceed more smoothly.

Please try updating your copy of the code (git pull origin master) and attempt to create the environment again.

bhill-17 commented 3 years ago

I updated the copy of of the code that I have but it's still having issues. Below are the issues I'm seeing image image

cjw85 commented 3 years ago

@bhill-17,

I'm investigating ways through this dependency conflict.

cjw85 commented 3 years ago

Closed with https://github.com/nanoporetech/pipeline-umi-amplicon/issues/3