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- All Implemented Interfaces:
public class VariantUtils
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Field Summary
Fields Modifier and Type Field Description public static Map<Integer, String>
gvcfRemoteToLocalFiles
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Method Summary
Modifier and Type Method Description static Map<Integer, String>
getGvcfRemoteToLocalFiles()
This method returns the gvcfRemoteToLocalFiles map static void
setGvcfRemoteToLocalFiles(Map<Integer, String> gvcfRemoteToLocalFiles)
static String
gvcfFilePath(int gvcfId)
This method returns the gvcf file path for the given gvcfId. static void
setupGVCFRemoteToLocalFiles(Connection database, String localGVCFFolder)
takes the remote gvcf file paths as stored in the db genome_file_data table, and translates them to a local path based on the user provided localGVCFFolder value -
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Method Detail
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getGvcfRemoteToLocalFiles
static Map<Integer, String> getGvcfRemoteToLocalFiles()
This method returns the gvcfRemoteToLocalFiles map
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setGvcfRemoteToLocalFiles
static void setGvcfRemoteToLocalFiles(Map<Integer, String> gvcfRemoteToLocalFiles)
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gvcfFilePath
static String gvcfFilePath(int gvcfId)
This method returns the gvcf file path for the given gvcfId.
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setupGVCFRemoteToLocalFiles
static void setupGVCFRemoteToLocalFiles(Connection database, String localGVCFFolder)
takes the remote gvcf file paths as stored in the db genome_file_data table, and translates them to a local path based on the user provided localGVCFFolder value
- Parameters:
database
- - the database connection
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