spack/var/spack/repos/builtin/packages/bowtie2/bowtie2-2.3.0.patch

--- Makefile.orig	2017-10-19 16:22:27.589185696 -0700
+++ Makefile	2017-10-19 16:23:26.094227199 -0700
@@ -25,10 +25,10 @@
 bindir = $(prefix)/bin
 
 INC =
-GCC_PREFIX = $(shell dirname `which gcc`)
+GCC_PREFIX =
 GCC_SUFFIX =
-CC ?= $(GCC_PREFIX)/gcc$(GCC_SUFFIX)
-CPP ?= $(GCC_PREFIX)/g++$(GCC_SUFFIX)
+CC = cc
+CPP = c++
 CXX ?= $(CPP)
 HEADERS = $(wildcard *.h)
 BOWTIE_MM = 1
Add bowtie2@2.3.0, fix dependencies and sbangs (#5834) * Add bowtie2@2.3.0, fix dependencies and sbangs Add support for bowtie2@2.3.0 - digest - a patch for 2.3.0 that parallels the existing package. Truth be told it builds (for me) without this, but I'm assuming that they're there for a reason...). - tune up dependencies - need tbb - don't need readline or zlib Several things were installed with sbang's that use `/usr/bin/env` to fine perl or python. Fix the dependency and clean up the sbang lines. * Fix python exe name, avoid path banging I'd cut and pasted the python bit from the perl bit and missed one reference to perl. While I'm there, use the cleaner `spec['perl'].command` instead of banging together the path from its bits. * Fix up the "when" constraints on the dependencies Get the edge cases right. - 2.2.5 doesn't need tbb, 2.3.[01] do. - 2.3.1 needs readline and zlib. 2017-10-30 05:40:00 +08:00			`--- Makefile.orig 2017-10-19 16:22:27.589185696 -0700`
			`+++ Makefile 2017-10-19 16:23:26.094227199 -0700`
			`@@ -25,10 +25,10 @@`
			`bindir = $(prefix)/bin`

			`INC =`
			-GCC_PREFIX = $(shell dirname `which gcc`)
			`+GCC_PREFIX =`
			`GCC_SUFFIX =`
			`-CC ?= $(GCC_PREFIX)/gcc$(GCC_SUFFIX)`
			`-CPP ?= $(GCC_PREFIX)/g++$(GCC_SUFFIX)`
			`+CC = cc`
			`+CPP = c++`
			`CXX ?= $(CPP)`
			`HEADERS = $(wildcard *.h)`
			`BOWTIE_MM = 1`