################################################################################
##
## 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 AnalyseSamples.mk
##
## brief Partial makefile to navigate the hierarchy of projects and samples.
##
## author Come Raczy
##
################################################################################

ifeq (,$(currentSamples))
$(error ERROR: project $(project): empty list of samples)
endif

sample := $(word 1, $(currentSamples))

ifeq (1,$(words $(currentSamples)))
currentSamples :=
else
currentSamples := $(wordlist 2, $(words $(currentSamples)), $(currentSamples))
endif

currentLanes := $($(project)_$(sample)_LANES)

$(project)_$(sample)_DATASET_PAIR_XML_FILES:=
$(project)_$(sample)_DATASET_SOURCE_PAIR_XML_FILES:=
include $(foreach lane, $(currentLanes),  $(MAKEFILES_DIR)/AnalyseLanes.mk)
$(project)_DATASET_PAIR_XML_FILES += $($(project)_$(sample)_DATASET_PAIR_XML_FILES)

$($(project)_$(sample)_OUT_DIR)/$(sample)$(PAIR_SUFFIX): $($(project)_$(sample)_DATASET_SOURCE_PAIR_XML_FILES)
	$(CMDPREFIX) $(CONS) --int $^ > $(SAFEPIPETARGET)

ifneq (,$($(project)_$(sample)_DATASET_SOURCE_PAIR_XML_FILES))
$(project)_SAMPLE_PAIR_XML_FILES += $($(project)_$(sample)_OUT_DIR)/$(sample)$(PAIR_SUFFIX)
endif