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Set up directories
$ . $TESTDIR/setup.sh
Set up the executable: loadPulses.
$ EXEC=$TESTDIR/../loadPulses
#Test loadPulses: input is a bas.h5 file
#Test -byread and -bymetric
$ BAS_IN_1=$DATDIR/lambda_lp.fofn
$ CMP_IN_1=$DATDIR/lambda_lp.cmp.h5
$ CMP_STDOUT_1=$STDDIR/lambda_lp.cmp.h5
$ CMP_OUT_byread_1=$OUTDIR/lambda.byread.cmp.h5
$ CMP_OUT_bymetric_1=$OUTDIR/lambda.bymetric.cmp.h5
$ METRICS=QualityValue,MergeQV,InsertionQV,DeletionQV,DeletionTag,PulseWidth,SubstitutionQV,SubstitutionTag
$ rm -f $CMP_OUT_byread_1
$ cp $CMP_IN_1 $CMP_OUT_byread_1
$ $EXEC $BAS_IN_1 $CMP_OUT_byread_1 -metrics $METRICS -byread > $OUTDIR/tmp.log
[INFO] * [loadPulses] started. (glob)
[INFO] * [loadPulses] ended. (glob)
$ h5diff -c $CMP_OUT_byread_1 $CMP_STDOUT_1
dataset: </FileLog/CommandLine> and </FileLog/CommandLine>
\d+ differences found (re)
dataset: </FileLog/Timestamp> and </FileLog/Timestamp>
\d+ differences found (re)
[1]
$ rm -f $CMP_OUT_bymetric_1
$ cp $CMP_IN_1 $CMP_OUT_bymetric_1
$ $EXEC $BAS_IN_1 $CMP_OUT_bymetric_1 -metrics $METRICS -bymetric > $OUTDIR/tmp.log
[INFO] * [loadPulses] started. (glob)
[INFO] * [loadPulses] ended. (glob)
$ h5diff -c $CMP_OUT_bymetric_1 $CMP_STDOUT_1
dataset: </FileLog/CommandLine> and </FileLog/CommandLine>
\d+ differences found (re)
dataset: </FileLog/Timestamp> and </FileLog/Timestamp>
\d+ differences found (re)
[1]
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