################################################################################
##
## Copyright (c) 2007-2011 Illumina, Inc.
##
## This software is covered by the "Illumina Genome Analyzer Software
## License Agreement" and the "Illumina Source Code License Agreement",
## and certain third party copyright/licenses, and any user of this
## source file is bound by the terms therein (see accompanying files
## Illumina_Genome_Analyzer_Software_License_Agreement.pdf and
## Illumina_Source_Code_License_Agreement.pdf and third party
## copyright/license notices).
##
## This file is part of the Consensus Assessment of Sequence And VAriation
## (CASAVA) software package.
##
## file ErrorGraphs.mk
##
## brief Partial makefile to build the error graphs for a single lane.
##
## Build alignment statistics plots.
##
## author Roman Petrovski
##
################################################################################

PEG:=${TOOLS_DIR}/plot_error_graphs.pl
PEG_POST_LANE_PARAMS:=$(RESCORE_SUFFIX) $(RESCORE_IMG_SUFFIX) $(RESCORE_IMG_THUMB_SUFFIX) $(PEC_IMG_SUFFIX) $(PEC_IMG_THUMB_SUFFIX) 

$(dataset)_ERROR_GRAPH_TARGETS:=\
$(foreach tile,$($(project)_$(sample)_$(lane)_PADDED_TILES),$($(dataset)_PLOTS_DIR)/$(barcode)/s_$(lane)_$(tile)$(RESCORE_IMG_THUMB_SUFFIX)) \
$(foreach tile,$($(project)_$(sample)_$(lane)_PADDED_TILES),$($(dataset)_PLOTS_DIR)/$(barcode)/s_$(lane)_$(tile)$(PEC_IMG_THUMB_SUFFIX)) \
$(foreach tile,$($(project)_$(sample)_$(lane)_PADDED_TILES),$($(dataset)_PLOTS_DIR)/$(barcode)/s_$(lane)_$(tile)$(RESCORE_IMG_SUFFIX)) \
$(foreach tile,$($(project)_$(sample)_$(lane)_PADDED_TILES),$($(dataset)_PLOTS_DIR)/$(barcode)/s_$(lane)_$(tile)$(PEC_IMG_SUFFIX))

.PRECIOUS: $($(dataset)_ERROR_GRAPH_TARGETS)

$(dataset)_ERROR_GRAPH_PATTERN_TARGETS:=\
$(foreach tile,$($(project)_$(sample)_$(lane)_PADDED_TILES),$($(dataset)_PLOTS_DIR)/$(barcode)/s_$(lane)%$(tile)$(RESCORE_IMG_THUMB_SUFFIX)) \
$(foreach tile,$($(project)_$(sample)_$(lane)_PADDED_TILES),$($(dataset)_PLOTS_DIR)/$(barcode)/s_$(lane)%$(tile)$(PEC_IMG_THUMB_SUFFIX)) \
$(foreach tile,$($(project)_$(sample)_$(lane)_PADDED_TILES),$($(dataset)_PLOTS_DIR)/$(barcode)/s_$(lane)%$(tile)$(RESCORE_IMG_SUFFIX)) \
$(foreach tile,$($(project)_$(sample)_$(lane)_PADDED_TILES),$($(dataset)_PLOTS_DIR)/$(barcode)/s_$(lane)%$(tile)$(PEC_IMG_SUFFIX))

$($(dataset)_ERROR_GRAPH_PATTERN_TARGETS): lane := $(lane)
$($(dataset)_ERROR_GRAPH_PATTERN_TARGETS): dataset := $(dataset)
$($(dataset)_ERROR_GRAPH_PATTERN_TARGETS): barcode := $(barcode)

$($(dataset)_PLOTS_DIR)/$(barcode)/.s_$(lane)_error_graph_targets: lane := $(lane)
$($(dataset)_PLOTS_DIR)/$(barcode)/.s_$(lane)_error_graph_targets: dataset := $(dataset)
$($(dataset)_PLOTS_DIR)/$(barcode)/.s_$(lane)_error_graph_targets: barcode := $(barcode)

# use a surrogate file to avoid large pattern rules that use a lot of memory
$($(dataset)_PLOTS_DIR)/$(barcode)/.s_$(lane)_error_graph_targets: \
  $($(dataset)_STATS_DIR)/$(barcode)/s_$(lane)_$(SCORE_XML) \
  $($(dataset)_STATS_DIR)/$(barcode)/s_$(lane)_$(RESCORE_XML) \
  $($(dataset)_TEMP_DIR)/.sentinel \
  $($(dataset)_PLOTS_DIR)/$(barcode)/.sentinel
	$(CMDPREFIX) \
	$(PEG) $($(dataset)_STATS_DIR)/$(barcode)/s_$(lane)$(TILES_SUFFIX) s_$(lane) \
		$(PEG_POST_LANE_PARAMS) $($(dataset)_STATS_DIR)/$(barcode) $($(dataset)_TEMP_DIR) $($(dataset)_PLOTS_DIR)/$(barcode) \
	&& $(TOUCH) $@

.PRECIOUS: $($(dataset)_PLOTS_DIR)/$(barcode)/.s_$(lane)_error_graph_targets

$(project)_ERROR_GRAPH_TARGETS:= $($(project)_ERROR_GRAPH_TARGETS) $($(dataset)_PLOTS_DIR)/$(barcode)/.s_$(lane)_error_graph_targets