diff options
| author | jschauma <jschauma> | 2003-09-27 22:24:56 +0000 |
|---|---|---|
| committer | jschauma <jschauma> | 2003-09-27 22:24:56 +0000 |
| commit | 2dc74515e8f29331080b72ee4b6df363861e682b (patch) | |
| tree | bc3853eaa3aad636ff4353b466948ab8aa97c40f /biology/mummer/patches | |
| parent | 83d844b54c100db1506b9d4bad8d7e648355c338 (diff) | |
| download | pkgsrc-2dc74515e8f29331080b72ee4b6df363861e682b.tar.gz | |
Initial import of mummer, one of the many packages provided by
brook at biology dot nmsu dot edu and his team at NMSU.
Mummer is a system for aligning whole genome sequences. Using an efficient
data structure called a suffix tree, the system is able rapidly to align
sequences containing millions of nucleotides whether in complete or draft
form. MUMmer can also align incomplete genomes; it handles the 100s or 1000s
of contigs from a shotgun sequencing project with ease, and will align them to
another set of contigs or a genome using the NUCmer program included with the
system.
Diffstat (limited to 'biology/mummer/patches')
| -rw-r--r-- | biology/mummer/patches/patch-aa | 34 |
1 files changed, 34 insertions, 0 deletions
diff --git a/biology/mummer/patches/patch-aa b/biology/mummer/patches/patch-aa new file mode 100644 index 00000000000..e941dc25546 --- /dev/null +++ b/biology/mummer/patches/patch-aa @@ -0,0 +1,34 @@ +$NetBSD: patch-aa,v 1.1.1.1 2003/09/27 22:24:57 jschauma Exp $ + +--- Makefile.orig 2003-07-09 09:49:51.000000000 -0400 ++++ Makefile 2003-09-27 18:15:34.000000000 -0400 +@@ -22,7 +22,7 @@ + # 'make uninstall' alias for 'make clean' (for compatibility) + # + #------------------------------------------------------------------------------- +-SHELL = /bin/sh ++SHELL = ${SH} + VERSION := 3.04 + + +@@ -35,15 +35,12 @@ + TIGR_SRC_DIR := $(TOP_DIR)/src/tigr + KURTZ_SRC_DIR := $(TOP_DIR)/src/kurtz + +-CC := $(filter /%,$(shell /bin/sh -c 'type gcc')) +-CXX := $(filter /%,$(shell /bin/sh -c 'type g++')) +-SED := $(filter /%,$(shell /bin/sh -c 'type sed')) ++#CC := $(filter /%,$(shell /bin/sh -c 'type gcc')) ++#CXX := $(filter /%,$(shell /bin/sh -c 'type g++')) ++#SED := $(filter /%,$(shell /bin/sh -c 'type sed')) + CSH := $(filter /%,$(shell /bin/sh -c 'type csh')) +-PERL := $(filter /%,$(shell /bin/sh -c 'type perl')) +-AR := $(filter /%,$(shell /bin/sh -c 'type ar')) +- +-CPPFLAGS = -Wall -O3 +-LDFLAGS = ++#PERL := $(filter /%,$(shell /bin/sh -c 'type perl')) ++#AR := $(filter /%,$(shell /bin/sh -c 'type ar')) + + FLATS = ACKNOWLEDGEMENTS COPYRIGHT INSTALL LICENSE Makefile README + |