c_cpp/etc/jellyfish/tests/raw_hash.sh

   1 #! /bin/sh
   2
   3 cd tests
   4 . ./compat.sh
   5
   6 sort > ${pref}.md5sum <<EOF
   7 5c5d07dfb4e3de89b7fe4c72c714b921 ${pref}.stats
   8 dbe881e4649406321d0e481da08eab5c ${pref}_L.dump
   9 c3233e107bb6b42d0c979707f156264c ${pref}.query
  10 7059a4e90b6670b2d814e44e2bc7d429 ${pref}.histo
  11 EOF
  12 echo "Counting 22-mers on ${nCPUs} CPU" && \
  13     $JF count --matrix seq10m_matrix_22 -m 22 -c 2 -t $nCPUs \
  14     -o $pref -s 10000000 --raw --timing ${pref}.timing seq10m.fa && \
  15     $JF stats ${pref}_0 > ${pref}.stats && \
  16     $JF dump -c -L 2 ${pref}_0 > ${pref}_L.dump && \
  17     $JF histo -f ${pref}_0 > ${pref}.histo &&
  18     echo "GCCATTTCGATTAAAGAATGAT TAGGCATGCAACGCTTCCCTTT" | $JF query ${pref}_0 > ${pref}.query && \
  19     check ${pref}.md5sum
  20 RET=$?
  21
  22 cat ${pref}.timing
  23 # [ -z "$NODEL" ] && \
  24 #     rm -f ${pref}_* ${pref}.md5sum ${pref}.timing ${pref}.stats
  25 exit $RET