diff ezBAMQC/src/htslib/config.mk.in @ 0:dfa3745e5fd8

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/ezBAMQC/src/htslib/config.mk.in	Thu Mar 24 17:12:52 2016 -0400
@@ -0,0 +1,72 @@
+#  Optional configure Makefile overrides for htslib.
+#
+#    Copyright (C) 2015 Genome Research Ltd.
+#
+#    Author: John Marshall <[e-mail]>
+#
+# 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@
+includedir   = @includedir@
+libdir       = @libdir@
+datarootdir  = @datarootdir@
+mandir       = @mandir@
+
+CC     = @CC@
+RANLIB = @RANLIB@
+
+CFLAGS   = @CFLAGS@
+LDFLAGS  = @LDFLAGS@
+LDLIBS   = @LIBS@
+
+
+# ifeq/.../endif, +=, and target-specific variables are GNU Make-specific.
+# If you don't have GNU Make, comment out this conditional and note that
+# to enable iRODS you will need to implement the following elsewhere.
+ifeq "iRODS-@irods@" "iRODS-enabled"
+
+@define_IRODS_HOME@
+
+EXTRA_CPPFLAGS_IRODS = \
+	-I$(IRODS_HOME)/lib/api/include \
+	-I$(IRODS_HOME)/lib/core/include \
+	-I$(IRODS_HOME)/lib/md5/include \
+	-I$(IRODS_HOME)/lib/sha1/include \
+	-I$(IRODS_HOME)/server/core/include \
+	-I$(IRODS_HOME)/server/drivers/include \
+	-I$(IRODS_HOME)/server/icat/include
+
+LDFLAGS += -L$(IRODS_HOME)/lib/core/obj
+LDLIBS  += -lRodsAPIs -lgssapi_krb5
+
+LIBHTS_OBJS += hfile_irods.o
+
+hfile.o hfile.pico: CPPFLAGS += -DHAVE_IRODS
+
+hfile_irods.o hfile_irods.pico: CPPFLAGS += $(EXTRA_CPPFLAGS_IRODS)
+
+endif