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Adds edits to enable pipeline run on new servers #7

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@DimmestP DimmestP commented Feb 15, 2022

Changes flowchart from jpeg to png (can't seem to find jpeg plugin)

Adds -c 1 flag to novoalign call. This stops novoalign from running on multiple cores. Obviously this hinders its speed but I think ruffus loses track of the extra cores. Hence, it runs the next line of pipeline before the .sam files have actually been created.

Changes flowchart from jpeg to png (can't seem to find jpeg plugin)
Adds -c 1 flag to novoalign call. This stops novoalign from running on multiple cores. Obviously this hinders the its speed but I think ruffus loses track of the extra cores. Hence, it runs the next line of pipeline before the .sam files have actually been created.
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