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|
APPGROUP = conversion
CWD := $(abspath $(patsubst %/,%,$(dir $(abspath $(lastword $(MAKEFILE_LIST))))))
CONVERT2BED = $(CWD)/../../bin/convert2bed
CONVERT2BEDBIN = convert2bed
TMP := $(shell mktemp -d)
DATA = $(CWD)/data
SHELL := /bin/bash
all:
@echo "Testing binary group [$(APPGROUP)] and build type [$(BUILDTYPE)]"
@$(MAKE) tests
tests: wig2bed
@echo "Removing [$(TMP)]"
@rm -rf $(TMP)
wig2bed: wig2bed_prep wig2bed_with_chr_prefix_no_header wig2bed_no_chr_prefix_no_header wig2bed_fixedStep_with_chr_prefix_no_header wig2bed_fixedStep_no_chr_prefix_no_header wig2bed_variableStep_with_chr_prefix_no_header wig2bed_variableStep_no_chr_prefix_no_header wig2bed_multipleTracks_with_chr_prefix_with_header wig2bed_multipleTracks_no_chr_prefix_with_header
wig2bed_prep:
@[ -f $(CONVERT2BED) ] || echo "Missing binary [$(CONVERT2BED)] for build type [$(BUILDTYPE)]"
@echo "Writing to [$(TMP)]"
$(CONVERT2BED) --input=wig --version
wig2bed_with_chr_prefix_no_header:
# Test 001
# convert2bed --input=wig < tests/conversion/data/001.wig2bed_with_chr_prefix_no_header.001.wig > tests/conversion/data/001.wig2bed_with_chr_prefix_no_header.001.expected
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 001]"
@$(CONVERT2BED) --input=wig < $(DATA)/001.wig2bed_with_chr_prefix_no_header.001.wig > $(TMP)/001.wig2bed_with_chr_prefix_no_header.001.observed
@diff $(TMP)/001.wig2bed_with_chr_prefix_no_header.001.observed $(DATA)/001.wig2bed_with_chr_prefix_no_header.001.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
wig2bed_no_chr_prefix_no_header:
# Test 002
# convert2bed --input=wig < tests/conversion/data/002.wig2bed_no_chr_prefix_no_header.001.wig > tests/conversion/data/002.wig2bed_no_chr_prefix_no_header.001.expected
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 002]"
@$(CONVERT2BED) --input=wig < $(DATA)/002.wig2bed_no_chr_prefix_no_header.001.wig > $(TMP)/002.wig2bed_no_chr_prefix_no_header.001.observed
@diff $(TMP)/002.wig2bed_no_chr_prefix_no_header.001.observed $(DATA)/002.wig2bed_no_chr_prefix_no_header.001.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
wig2bed_fixedStep_with_chr_prefix_no_header:
# Test 003
# convert2bed --input=wig < tests/conversion/data/003.wig2bed_fixedStep_with_chr_prefix_no_header.001.wig > tests/conversion/data/003.wig2bed_fixedStep_with_chr_prefix_no_header.001.expected
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 003 - step = 100, span = 1 (default)]"
@$(CONVERT2BED) --input=wig < $(DATA)/003.wig2bed_fixedStep_with_chr_prefix_no_header.001.wig > $(TMP)/003.wig2bed_fixedStep_with_chr_prefix_no_header.001.observed
@diff $(TMP)/003.wig2bed_fixedStep_with_chr_prefix_no_header.001.observed $(DATA)/003.wig2bed_fixedStep_with_chr_prefix_no_header.001.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 003 - step = 100, span = 5 (custom)]"
@$(CONVERT2BED) --input=wig < $(DATA)/003.wig2bed_fixedStep_with_chr_prefix_no_header.002.wig > $(TMP)/003.wig2bed_fixedStep_with_chr_prefix_no_header.002.observed
@diff $(TMP)/003.wig2bed_fixedStep_with_chr_prefix_no_header.002.observed $(DATA)/003.wig2bed_fixedStep_with_chr_prefix_no_header.002.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
wig2bed_fixedStep_no_chr_prefix_no_header:
# Test 004
# convert2bed --input=wig < tests/conversion/data/004.wig2bed_fixedStep_no_chr_prefix_no_header.001.wig > tests/conversion/data/004.wig2bed_fixedStep_no_chr_prefix_no_header.001.expected
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 004 - step = 100, span = 1 (default)]"
@$(CONVERT2BED) --input=wig < $(DATA)/004.wig2bed_fixedStep_no_chr_prefix_no_header.001.wig > $(TMP)/004.wig2bed_fixedStep_no_chr_prefix_no_header.001.observed
@diff $(TMP)/004.wig2bed_fixedStep_no_chr_prefix_no_header.001.observed $(DATA)/004.wig2bed_fixedStep_no_chr_prefix_no_header.001.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 004 - step = 100, span = 5 (custom)]"
@$(CONVERT2BED) --input=wig < $(DATA)/004.wig2bed_fixedStep_no_chr_prefix_no_header.002.wig > $(TMP)/004.wig2bed_fixedStep_no_chr_prefix_no_header.002.observed
@diff $(TMP)/004.wig2bed_fixedStep_no_chr_prefix_no_header.002.observed $(DATA)/004.wig2bed_fixedStep_no_chr_prefix_no_header.002.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
wig2bed_variableStep_with_chr_prefix_no_header:
# Test 005
# convert2bed --input=wig < tests/conversion/data/005.wig2bed_variableStep_with_chr_prefix_no_header.001.wig > tests/conversion/data/005.wig2bed_variableStep_with_chr_prefix_no_header.001.expected
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 005 - variable step, span = 1 (default)]"
@$(CONVERT2BED) --input=wig < $(DATA)/005.wig2bed_variableStep_with_chr_prefix_no_header.001.wig > $(TMP)/005.wig2bed_variableStep_with_chr_prefix_no_header.001.observed
@diff $(TMP)/005.wig2bed_variableStep_with_chr_prefix_no_header.001.observed $(DATA)/005.wig2bed_variableStep_with_chr_prefix_no_header.001.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 005 - variable step, span = 5 (custom)]"
@$(CONVERT2BED) --input=wig < $(DATA)/005.wig2bed_variableStep_with_chr_prefix_no_header.002.wig > $(TMP)/005.wig2bed_variableStep_with_chr_prefix_no_header.002.observed
@diff $(TMP)/005.wig2bed_variableStep_with_chr_prefix_no_header.002.observed $(DATA)/005.wig2bed_variableStep_with_chr_prefix_no_header.002.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
wig2bed_variableStep_no_chr_prefix_no_header:
# Test 006
# convert2bed --input=wig < tests/conversion/data/006.wig2bed_variableStep_no_chr_prefix_no_header.001.wig > tests/conversion/data/006.wig2bed_variableStep_no_chr_prefix_no_header.001.expected
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 006 - variable step, span = 1 (default)]"
@$(CONVERT2BED) --input=wig < $(DATA)/006.wig2bed_variableStep_no_chr_prefix_no_header.001.wig > $(TMP)/006.wig2bed_variableStep_no_chr_prefix_no_header.001.observed
@diff $(TMP)/006.wig2bed_variableStep_no_chr_prefix_no_header.001.observed $(DATA)/006.wig2bed_variableStep_no_chr_prefix_no_header.001.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 006 - variable step, span = 5 (custom)]"
@$(CONVERT2BED) --input=wig < $(DATA)/006.wig2bed_variableStep_no_chr_prefix_no_header.002.wig > $(TMP)/006.wig2bed_variableStep_no_chr_prefix_no_header.002.observed
@diff $(TMP)/006.wig2bed_variableStep_no_chr_prefix_no_header.002.observed $(DATA)/006.wig2bed_variableStep_no_chr_prefix_no_header.002.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
wig2bed_multipleTracks_with_chr_prefix_with_header:
# Test 007
# convert2bed --input=wig < tests/conversion/data/007.wig2bed_multipleTracks_with_chr_prefix_with_header.001.wig > tests/conversion/data/007.wig2bed_multipleTracks_with_chr_prefix_with_header.001.expected
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 007 - multiple tracks]"
@$(CONVERT2BED) --input=wig < $(DATA)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.001.wig > $(TMP)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.001.observed
@diff $(TMP)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.001.observed $(DATA)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.001.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 007 - multiple tracks, with --multisplit <str> option]"
@$(CONVERT2BED) --input=wig --multisplit foo < $(DATA)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.001.wig > $(TMP)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.002.observed
@diff $(TMP)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.002.observed $(DATA)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.002.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 007 - multiple tracks, preserve header]"
@$(CONVERT2BED) --input=wig --keep-header < $(DATA)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.001.wig > $(TMP)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.003.observed
@diff $(TMP)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.003.observed $(DATA)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.003.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 007 - multiple tracks, with --multisplit <str> option, preserve header]"
@$(CONVERT2BED) --input=wig --multisplit foo --keep-header < $(DATA)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.001.wig > $(TMP)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.004.observed
@diff $(TMP)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.004.observed $(DATA)/007.wig2bed_multipleTracks_with_chr_prefix_with_header.004.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
wig2bed_multipleTracks_no_chr_prefix_with_header:
# Test 008
# convert2bed --input=wig < tests/conversion/data/008.wig2bed_multipleTracks_no_chr_prefix_with_header.001.wig > tests/conversion/data/008.wig2bed_multipleTracks_no_chr_prefix_with_header.001.expected
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 008 - multiple tracks, no chr prefix]"
@$(CONVERT2BED) --input=wig < $(DATA)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.001.wig > $(TMP)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.001.observed
@diff $(TMP)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.001.observed $(DATA)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.001.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 008 - multiple tracks, no chr prefix, with --multisplit <str> option]"
@$(CONVERT2BED) --input=wig --multisplit foo < $(DATA)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.001.wig > $(TMP)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.002.observed
@diff $(TMP)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.002.observed $(DATA)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.002.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 008 - multiple tracks, no chr prefix, preserve header]"
@$(CONVERT2BED) --input=wig --keep-header < $(DATA)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.001.wig > $(TMP)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.003.observed
@diff $(TMP)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.003.observed $(DATA)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.003.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
@printf "[$(APPGROUP)-$(CONVERT2BEDBIN)-$(BUILDTYPE) | $@ ] - [Test 008 - multiple tracks, no chr prefix, with --multisplit <str> option, preserve header]"
@$(CONVERT2BED) --input=wig --multisplit foo --keep-header < $(DATA)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.001.wig > $(TMP)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.004.observed
@diff $(TMP)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.004.observed $(DATA)/008.wig2bed_multipleTracks_no_chr_prefix_with_header.004.expected || (printf " ...failed!\n" && exit 1)
@printf " ...passed!\n"
|
