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6
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1 #!/usr/bin/env bash
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2
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3 localBinPath="/usr/local/bin/"
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4 hgDownloadURl="http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/"
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5
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6 # Binaries needed for HAC
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7 twoBitInfo="twoBitInfo"
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8 faToTwoBit="faToTwoBit"
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9 gff3ToGenePred="gff3ToGenePred"
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10 gtfToGenePred="gtfToGenePred"
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11 genePredToBed="genePredToBed"
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12 # sort="sort"
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13 bedToBigBed="bedToBigBed"
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14
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15 binariesArray=( ${twoBitInfo} ${faToTwoBit} ${gff3ToGenePred} ${gtfToGenePred} ${genePredToBed} ${bedToBigBed} )
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16
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17 # Download and install binaries
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18 for binaryName in "${binariesArray[@]}"
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19 do
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20 binaryInstallationPath="${localBinPath}/${binaryName}"
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21 sudo wget -P ${localBinPath} "${hgDownloadURl}/${binaryName}"
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22 sudo chown ${USER} ${binaryInstallationPath}
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23 sudo chmod +x ${binaryInstallationPath}
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24 done
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