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1 include ../bin/deseq_config.sh
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2
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3 MEX=${MATLAB_MEX_PATH}
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4 MKOCTFILE=${OCTAVE_MKOCT}
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5 MATLAB_INCL=${MATLAB_INCLUDE_DIR}
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6 SAMDIR=${SAMTOOLS_DIR}
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7
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8
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9 all: get_reads.mex get_bam_properties.mex interval_overlap.mex get_reads.mexa64 get_bam_properties.mexa64 interval_overlap.mexa64
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10 octave: get_reads.mex get_bam_properties.mex interval_overlap.mex
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11 matlab: get_reads.mexa64 get_bam_properties.mexa64 interval_overlap.mexa64
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12
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13
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14 get_reads.mexa64: get_reads.cpp get_reads_direct.cpp mex_input.cpp read.cpp
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15 rm -f *.o
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16 ${MEX} -g -O get_reads.cpp get_reads_direct.cpp mex_input.cpp read.cpp -I${SAMDIR} -L${SAMDIR} -lbam -lz -lcurses -I$(MATLAB_INCL)
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17
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18 get_bam_properties.mexa64: get_bam_properties.cpp
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19 rm -f *.o
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20 ${MEX} -g -O get_bam_properties.cpp -I$(MATLAB_INCL)
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21
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22 interval_overlap.mexa64: interval_overlap.cpp
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23 ${MEX} -g -O interval_overlap.cpp -I$(MATLAB_INCL)
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24
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25 get_reads.mex: get_reads.cpp get_reads_direct.cpp mex_input.cpp read.cpp
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26 rm -f *.o
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27 ${MKOCTFILE} -g --mex get_reads.cpp get_reads_direct.cpp mex_input.cpp read.cpp -I${SAMDIR} -L${SAMDIR} -lbam -lz -lcurses
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28
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29 get_bam_properties.mex: get_bam_properties.cpp
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30 rm -f *.o
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31 ${MKOCTFILE} -g --mex get_bam_properties.cpp
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32
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33 interval_overlap.mex: interval_overlap.cpp
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34 rm -f *.o
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35 ${MKOCTFILE} -g --mex interval_overlap.cpp
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36
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37 clean:
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38 rm -f *.o *.mexa64 *.mex
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