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# ===========================================================================
#
# PUBLIC DOMAIN NOTICE
# National Center for Biotechnology Information
#
# This software/database is a "United States Government Work" under the
# terms of the United States Copyright Act. It was written as part of
# the author's official duties as a United States Government employee and
# thus cannot be copyrighted. This software/database is freely available
# to the public for use. The National Library of Medicine and the U.S.
# Government have not placed any restriction on its use or reproduction.
#
# Although all reasonable efforts have been taken to ensure the accuracy
# and reliability of the software and data, the NLM and the U.S.
# Government do not and cannot warrant the performance or results that
# may be obtained by using this software or data. The NLM and the U.S.
# Government disclaim all warranties, express or implied, including
# warranties of performance, merchantability or fitness for any particular
# purpose.
#
# Please cite the author in any work or product based on this material.
#
# ===========================================================================
default: run_all
clean:
.PHONY: default clean
PYTHON ?= python3
NGS_EXAMPLES = \
FragTest \
AlignTest \
AlignSliceTest \
PileupTest \
RefTest
# ===========================================================================
#
# example runs
#
SETUP ?= NGS_PY_LIBRARY_PATH=../../lib64
run_frag:
$(SETUP) $(PYTHON) FragTest.py ERR225922 10000 2 $(REDIRECT)
run_align:
$(SETUP) $(PYTHON) AlignTest.py ERR225922 10000 2 $(REDIRECT)
run_align_slice:
$(SETUP) $(PYTHON) AlignSliceTest.py SRR1121656 1 1 9999 $(REDIRECT)
run_pileup:
$(SETUP) $(PYTHON) PileupTest.py SRR1121656 1 9999 10003 $(REDIRECT)
run_ref:
$(SETUP) $(PYTHON) RefTest.py SRR1121656 $(REDIRECT)
ALL_TESTS = run_frag run_align run_align_slice run_pileup run_ref
run_all: $(ALL_TESTS)
.PHONY: run_all $(ALL_TESTS)
run_and_diff: expected.txt
rm -f actual.txt; $(MAKE) run_all REDIRECT=">>actual.txt" ; \
diff expected.txt actual.txt && rm actual.txt && echo NGS Python examples work as expected
.PHONY: run_and_diff
|
