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[GL_RefAnnotTable] Readd comment
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  • GeneLab_Reference_Annotations/Workflow_Documentation/GL_RefAnnotTable-A/workflow_code

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GeneLab_Reference_Annotations/Workflow_Documentation/GL_RefAnnotTable-A/workflow_code/install-org-db.R

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# install-org-db.R
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# Function: Get annotations db from ref table. If no annotations db is defined, create the package name from genus, species, (and strain for microbes),
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# Try to Bioconductor install annotations db. If fail then build the package using AnnotationForge, install it into the current directory.
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# Requires ~80GB for NCBIFilesDir file caching
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install_annotations <- function(target_organism, refTablePath) {
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if (!file.exists(refTablePath)) {
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stop("Reference table file does not exist at the specified path: ", refTablePath)

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