################################################################################
##
## 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 ElandExtended.mk
##
## brief Partial makefile to build the eland extended files for a single lane.
##
## This partial makefile encapsulates the mechanisms to split each lane into a
## number of subsets of tiles before processing by ELAND. The size of the sets
## is defined as a number of tiles, controlled by ELAND_FASTQ_FILES_PER_PROCESS
## (customisable on the make command line).
##
## As a temporary solution in CASAVA 1.6, the partial eland extended files for
## all the subsets are concatenated by lane, to comply with the original down-
## stream workflow.
##
## The mechanism to split the list of tiles into subsets is based on recursive
## inclusion of the ElandExtendedAux.mk auxiliary file.
##
## author Come Raczy
##
################################################################################

read := $(word 1, $($(dataset)_READS))
currentSetList := $($(dataset)_ELAND_SETS)
include $(foreach set, $(currentSetList), $(MAKEFILES_DIR)/ElandExtendedAux1.mk)

ifneq (1,$(words $($(dataset)_READS)))

read := $(word 2, $($(dataset)_READS))
currentSetList := $($(dataset)_ELAND_SETS)
include $(foreach set, $(currentSetList), $(MAKEFILES_DIR)/ElandExtendedAux1.mk)


endif