c_cpp/etc/jellyfish/tests/parallel_fastq_sequence_hashing.sh

   1 #! /bin/sh
   2
   3 cd tests
   4 . ./compat.sh
   5
   6 sort > ${pref}.md5sum <<EOF
   7 8a0fe8ee1293f341fbde69e670beb74c ${pref}.histo
   8 EOF
   9 echo "Counting 22-mers, fastq format, no quality, on ${nCPUs} CPU" && \
  10     $JF count --matrix seq10m_matrix_22 -m 22 -t $nCPUs \
  11     -o ${pref} -s 10000000 --timing ${pref}.timing seq10m.fq && \
  12     $JF histo -f ${pref}_0 > ${pref}.histo && \
  13     check ${pref}.md5sum
  14 RET=$?
  15
  16 cat ${pref}.timing
  17 # [ -z "$NODEL" ] && \
  18 #     rm ${pref}.md5sum ${pref}.histo ${pref}_* ${pref}.timing
  19
  20 exit $RET