#  Optional configure Makefile overrides for bcftools.
#
#    Copyright (C) 2015,2017, 2019 Genome Research Ltd.
#
#    Author: John Marshall <jm18@sanger.ac.uk>
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
# copies of the Software, and to permit persons to whom the Software is
# furnished to do so, subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included in
# all copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL
# THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
# FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
# DEALINGS IN THE SOFTWARE.

# This is @configure_input@
#
# If you use configure, this file overrides variables and augments rules
# in the Makefile to reflect your configuration choices.  If you don't run
# configure, the main Makefile contains suitable conservative defaults.

prefix       = @prefix@
exec_prefix  = @exec_prefix@
bindir       = @bindir@
libexecdir   = @libexecdir@
datarootdir  = @datarootdir@
mandir       = @mandir@

CC       = @CC@
CPPFLAGS = @CPPFLAGS@
CFLAGS   = @CFLAGS@
LDFLAGS  = @LDFLAGS@
LIBS     = @LIBS@

DYNAMIC_FLAGS = @CC_RDYNAMIC_OPT@

USE_GPL = @USE_GPL@
GSL_LIBS = @GSL_LIBS@
PERL_CFLAGS = @PERL_CCOPTS@
PERL_LIBS = @PERL_LIBS@

PLATFORM   = @PLATFORM@
PLUGINS_ENABLED = @enable_bcftools_plugins@
plugindir  = @bcf_plugindir@
pluginpath = @bcf_pluginpath@
PLUGIN_EXT = @PLUGIN_EXT@

@Hsource@HTSDIR = @HTSDIR@
@Hsource@include $(HTSDIR)/htslib.mk
@Hsource@include $(HTSDIR)/htslib_static.mk
@Hsource@HTSLIB = $(HTSDIR)/libhts.a
@Hsource@HTSLIB_LIB = $(HTSLIB) $(HTSLIB_static_LIBS)
@Hsource@HTSLIB_DLL = $(HTSDIR)/@HTSLIB_DLL@
@Hsource@HTSLIB_LDFLAGS = $(HTSLIB_static_LDFLAGS)
@Hsource@W32_PLUGIN_LIBS = libbcftools.a $(HTSLIB_DLL) $(ALL_LIBS)
@Hsource@BGZIP = $(HTSDIR)/bgzip
@Hsource@TABIX = $(HTSDIR)/tabix
HTSLIB_CPPFLAGS = @HTSLIB_CPPFLAGS@
@Hinstall@HTSLIB_LDFLAGS = @HTSLIB_LDFLAGS@
@Hinstall@HTSLIB_LIB = -lhts
@Hinstall@W32_PLUGIN_LIBS = libbcftools.a $(HTSLIB_LDFLAGS) $(HTSLIB_LIB) $(ALL_LIBS)
