[pkgsrc/trunk]: pkgsrc/biology/stride Initial import of stride, one of the ma...

[jschauma <jschauma%pkgsrc.org@localhost>]

details:   https://anonhg.NetBSD.org/pkgsrc/rev/253e456b3163
branches:  trunk
changeset: 462207:253e456b3163
user:      jschauma <jschauma%pkgsrc.org@localhost>
date:      Sat Sep 27 23:46:55 2003 +0000

description:
Initial import of stride, one of the many packages provided by
brook at biology dot nmsu dot edu and his team at NMSU.

Knowledge-based protein secondary structure assignment from atomic
coordinates.

diffstat:

 biology/stride/DESCR            |   2 ++
 biology/stride/Makefile         |  19 +++++++++++++++++++
 biology/stride/PLIST            |   2 ++
 biology/stride/distinfo         |   5 +++++
 biology/stride/patches/patch-aa |  27 +++++++++++++++++++++++++++
 5 files changed, 55 insertions(+), 0 deletions(-)

diffs (75 lines):

diff -r 8cd2c14c5e74 -r 253e456b3163 biology/stride/DESCR
--- /dev/null   Thu Jan 01 00:00:00 1970 +0000
+++ b/biology/stride/DESCR      Sat Sep 27 23:46:55 2003 +0000
@@ -0,0 +1,2 @@
+Knowledge-based protein secondary structure assignment from atomic
+coordinates.
diff -r 8cd2c14c5e74 -r 253e456b3163 biology/stride/Makefile
--- /dev/null   Thu Jan 01 00:00:00 1970 +0000
+++ b/biology/stride/Makefile   Sat Sep 27 23:46:55 2003 +0000
@@ -0,0 +1,19 @@
+# $NetBSD: Makefile,v 1.1.1.1 2003/09/27 23:46:55 jschauma Exp $
+#
+
+DISTNAME=              stride
+PKGNAME=               stride-20030804
+WRKSRC=                        ${WRKDIR}
+CATEGORIES=            biology
+MASTER_SITES=          ftp://ftp.ebi.ac.uk/pub/software/unix/stride/src/
+
+MAINTAINER=            hdp%cs.nmsu.edu@localhost
+HOMEPAGE=              http://www-db.embl-heidelberg.de/jss/servlet/de.embl.bk.wwwTools.GroupLeftEMBL/argos/stride/stride_info.html
+COMMENT=               Protein secondary structure assignment from atomic coordinates
+
+USE_BUILDLINK2=                YES
+
+do-install:
+       ${INSTALL_PROGRAM} ${WRKDIR}/stride ${PREFIX}/bin
+
+.include "../../mk/bsd.pkg.mk"
diff -r 8cd2c14c5e74 -r 253e456b3163 biology/stride/PLIST
--- /dev/null   Thu Jan 01 00:00:00 1970 +0000
+++ b/biology/stride/PLIST      Sat Sep 27 23:46:55 2003 +0000
@@ -0,0 +1,2 @@
+@comment $NetBSD: PLIST,v 1.1.1.1 2003/09/27 23:46:56 jschauma Exp $
+bin/stride
diff -r 8cd2c14c5e74 -r 253e456b3163 biology/stride/distinfo
--- /dev/null   Thu Jan 01 00:00:00 1970 +0000
+++ b/biology/stride/distinfo   Sat Sep 27 23:46:55 2003 +0000
@@ -0,0 +1,5 @@
+$NetBSD: distinfo,v 1.1.1.1 2003/09/27 23:46:56 jschauma Exp $
+
+SHA1 (stride.tar.gz) = f85cca717c79200bf33fa3a80323ccd9da471669
+Size (stride.tar.gz) = 56441 bytes
+SHA1 (patch-aa) = b9f0469f078b4018af0de5e3aff524b831fc3703
diff -r 8cd2c14c5e74 -r 253e456b3163 biology/stride/patches/patch-aa
--- /dev/null   Thu Jan 01 00:00:00 1970 +0000
+++ b/biology/stride/patches/patch-aa   Sat Sep 27 23:46:55 2003 +0000
@@ -0,0 +1,27 @@
+$NetBSD: patch-aa,v 1.1.1.1 2003/09/27 23:46:56 jschauma Exp $
+
+--- Makefile.orig      2003-09-27 19:39:02.000000000 -0400
++++ Makefile   2003-09-27 19:39:47.000000000 -0400
+@@ -1,18 +1,19 @@
+ #CC = gcc -O2  # ->> for DJGPP compiler under DOS and for SunOS; also suitable for other machines
+ 
+-CC = cc -O2
+ FLAGS = -lm  -o
+ 
+ SOURCE = stride.c splitstr.c rdpdb.c initchn.c geometry.c thr2one.c one2thr.c filename.c tolostr.c strutil.c place_h.c hbenergy.c memory.c helix.c sheet.c rdmap.c phipsi.c command.c molscr.c die.c 
hydrbond.c mergepat.c fillasn.c escape.c p_jrnl.c p_rem.c p_atom.c p_helix.c p_sheet.c p_turn.c p_ssbond.c p_expdta.c p_model.c p_compnd.c report.c nsc.c area.c ssbond.c chk_res.c chk_atom.c turn.c 
pdbasn.c dssp.c outseq.c chkchain.c elem.c measure.c asngener.c p_endmdl.c stred.c
+ 
+ OBJECT = ${SOURCE:.c=.o} 
+ 
++all: stride
++
+ .c.o: 
+-      $(CC) -c $< -o $@
++      $(CC) ${CFLAGS} -c $< -o $@
+ 
+ 
+ stride : $(OBJECT)
+-      $(CC) $(OBJECT) $(FLAGS)  stride
++      $(CC) $(OBJECT) ${LDFLAGS} $(FLAGS)  stride
+ 
+ $(OBJECT) : stride.h protot.h
+