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fix SCRIPTPATH for different locations
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@urwahnawaz
urwahnawaz committed Dec 5, 2023
1 parent a610955 commit ce5196f
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Showing 4 changed files with 4 additions and 4 deletions.
2 changes: 1 addition & 1 deletion ANNOVARv3.sh
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# Variables that usually don't need changing once set for your system
AnnovarPATH=/opt/annovar # Where the Annovar program is
SCRIPTPATH=/home/neuro/Documents/Scripts/gitHub/VariantAnnotationToolkit # Where the python & perl scripts for Annovar or other general scripts are
SCRIPTPATH="$(dirname "$(readlink -f "$0")")" # Where the python & perl scripts for Annovar or other general scripts are
BUILD=hg19 # Genome build used by ANNOVAR either hg18 or $BUILD. This will also be incorporated into file names
AV_INPUT=$1.avinput
AV_DB=/opt/annovar/humandb/
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2 changes: 1 addition & 1 deletion ANNOVARv3_Mckenzie.sh
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# Variables that usually don't need changing once set for your system
AnnovarPATH=/opt/annovar # Where the Annovar program is
SCRIPTPATH=/home/neuro/Documents/Scripts/gitHub/VariantAnnotationToolkit # Where the python & perl scripts for Annovar or other general scripts are
SCRIPTPATH="$(dirname "$(readlink -f "$0")")" # Where the python & perl scripts for Annovar or other general scripts are
BUILD=hg19 # Genome build used by ANNOVAR either hg18 or $BUILD. This will also be incorporated into file names
AV_INPUT=$1.avinput
AV_DB=/opt/annovar/humandb/
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2 changes: 1 addition & 1 deletion ANNOVARv3_for_hg38.sh
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Expand Up @@ -3,7 +3,7 @@

# Variables that usually don't need changing once set for your system
AnnovarPATH=/opt/annovar # Where the Annovar program is
SCRIPTPATH=/home/neuro/Documents/Scripts/gitHub/VariantAnnotationToolkit # Where the python & perl scripts for Annovar or other general scripts are
SCRIPTPATH="$(dirname "$(readlink -f "$0")")" # Where the python & perl scripts for Annovar or other general scripts are
BUILD=Hs38DH # Genome build used by ANNOVAR either hg18 or $BUILD. This will also be incorporated into file names
AV_INPUT=$1.avinput
AV_DB=/opt/annovar/humandb/hg38/
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2 changes: 1 addition & 1 deletion ANNOVARv3_older.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -3,7 +3,7 @@

# Variables that usually don't need changing once set for your system
AnnovarPATH=/opt/annovar # Where the Annovar program is
SCRIPTPATH=/home/neuro/Documents/Scripts/gitHub/VariantAnnotationToolkit # Where the python & perl scripts for Annovar or other general scripts are
SCRIPTPATH="$(dirname "$(readlink -f "$0")")" # Where the python & perl scripts for Annovar or other general scripts are
BUILD=hg19 # Genome build used by ANNOVAR either hg18 or $BUILD. This will also be incorporated into file names
AV_INPUT=$1.avinput
AV_DB=/opt/annovar/humandb/
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