Pipeline for the automatic detection and segmentation of particles and cellular structures in 3D Cryo-ET data, based on deep learning (convolutional neural networks).
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deploy_cluster.sh harcoded values and assumptions #17
The deploy_cluster.sh scripts have hardcoded paths to the src directory required for running the snakemake job. They also have values for time and memory and a few other assumptions like sourcing .bashrc.
These scripts are difficult to install and use in a multiuser cluster environment. Normal users would not have write permission and thus would need to run them as is from the installation directory. This will almost certainly lead to incompatibilities and problems.
The scripts should either be reworked to account for this.
The deploy_cluster.sh scripts have hardcoded paths to the src directory required for running the snakemake job. They also have values for time and memory and a few other assumptions like sourcing .bashrc.
These scripts are difficult to install and use in a multiuser cluster environment. Normal users would not have write permission and thus would need to run them as is from the installation directory. This will almost certainly lead to incompatibilities and problems.
The scripts should either be reworked to account for this.