Manual Installation

We have received feedback indicating time out issues (in some cases) with the automatic installation using the conda profile. A quick alternative around this is to install the dependencies one by one from conda and pip as follows.

Create and activate conda environment for quasiflow

• conda create -n quasiflow
• conda activate quasiflow

Install the dependencies in the above mentioned conda environment

• conda install fastqc -c bioconda

• conda install multiqc -c bioconda

• conda install trim-galore -c bioconda

• conda install quasitools -c bioconda this may take some time but once it is installed, should be good to go.

• Then use pip to install Sierralocal, pip install sierralocal.

Install nextflow and use it to install QuasiFlow

• conda install nextflow -c bioconda
• nextflow pull AlfredUg/QuasiFlow

Confirm the installation

nextflow run ~/.nextflow/assets/AlfredUg/QuasiFlow --help