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smirarab / binning

Code for statistical binning and related scripts
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CPUs #4

Open GideonPisanty opened 5 years ago

GideonPisanty commented 5 years ago

Hello

How computationally intensive is this protocol, and is there a way to specify the number of CPUs that the scripts should use? I am now just in step 1 and I have no idea how long it would take, and if there is a way to optimize it. Thank you.

smirarab commented 5 years ago

Step 1 should be fast. When a step produces a bash file with many commands in it, you can run them separately on different cores. How you do this depends on the cluster you use.

The end-to-end running time will depend on your dataset size. It's not a very fast process though.

smirarab commented 5 years ago

The scripts outputs

On Fri, Nov 30, 2018 at 8:16 AM Gideon Pisanty notifications@github.com wrote:

Hello

How computationally intensive is this protocol, and is there a way to specify the number of CPUs that the scripts should use? I am now just in step 1 and I have no idea how long it would take, and if there is a way to optimize it. Thank you.

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GideonPisanty commented 5 years ago

Thank you!