c_cpp/etc/jellyfish/tests/multi_file_fastq.sh

   1 #! /bin/sh
   2
   3 cd tests
   4 . ./compat.sh
   5
   6 sort > ${pref}.md5sum <<EOF
   7 8ebb01305cbb36754ef060c1e37d6e4d ${pref}.histo
   8 EOF
   9 echo "Counting 22-mers on ${nCPUs} CPU" &&      \
  10     $JF count -q --matrix seq10m_matrix_22 -m 22 -t $nCPUs \
  11     -o $pref -s 5000000 --timing ${pref}.timing seq1m_*.fq && \
  12     $JF qhisto -f -l 0.0 -h 2.0 -i 0.1 ${pref}_0 > ${pref}.histo && \
  13     check ${pref}.md5sum
  14 RET=$?
  15
  16 cat ${pref}.timing
  17 # [ -z "$NODEL" ] && \
  18 #     rm -f ${pref}_* ${pref}.md5sum ${pref}.histo ${pref}.timing
  19 exit $RET