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9
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1 #!/bin/bash
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2 dir="$(cd "$(dirname "$0")" && pwd)"
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3 mkdir $PWD/$2_$3
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4
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5
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6 #!/bin/bash
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7 f=$(file $1)
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8 zip7Type="7-zip archive"
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9 tarType="tar archive"
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10 bzip2Type="bzip2 compressed"
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11 gzipType="gzip compressed"
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12 zipType="Zip archive"
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13 rarType="RAR archive"
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14
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15 if [[ "$f" == *"$zip7Type"* ]]; then
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16 echo "7-zip"
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17 echo "Trying: 7za e $1 -o$PWD/$2_$3/"
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18 7za e $1 -o$PWD/$2_$3/
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19 fi
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20
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21 if [[ "$f" == *"$tarType"* ]]
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22 then
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23 echo "tar archive"
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24 echo "Trying: tar xvf $1 -C $PWD/$2_$3/"
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25 tar xvf $1 -C $PWD/$2_$3/
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26 fi
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27
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28 if [[ "$f" == *"$bzip2Type"* ]]
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29 then
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30 echo "bzip2 compressed data"
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31 echo "Trying: tar jxf $1 -C $PWD/$2_$3/"
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32 tar jxf $1 -C $PWD/$2_$3/
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33 fi
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34
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35 if [[ "$f" == *"$gzipType"* ]]
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36 then
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37 echo "gzip compressed data"
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38 echo "Trying: tar xvzf $1 -C $PWD/$2_$3/"
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39 tar xvzf $1 -C $PWD/$2_$3/
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40 fi
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41
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42 if [[ "$f" == *"$zipType"* ]]
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43 then
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44 echo "Zip archive"
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45 echo "Trying: unzip $1 -d $PWD/$2_$3/"
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46 unzip $1 -d $PWD/$2_$3/
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47 fi
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48
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49 if [[ "$f" == *"$rarType"* ]]
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50 then
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51 echo "RAR archive"
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52 echo "Trying: unrar e $1 $PWD/$2_$3/"
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53 unrar e $1 $PWD/$2_$3/
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54 fi
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55 find $PWD/$2_$3/ -type f | grep -v "1_Summary_\|5_AA-sequences_\|6_Junction_" | xargs rm -f
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56 python $dir/imgtconvert.py --input $PWD/$2_$3 --output $4
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57
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