Date: Thu, 2 Dec 2010 09:50:24 GMT From: Eijiro Shibusawa <phd_kimberlite@yahoo.co.jp> To: freebsd-gnats-submit@FreeBSD.org Subject: ports/152771: LAPACK 3.3.0 port lacks some routines Message-ID: <201012020950.oB29oOPW093837@red.freebsd.org> Resent-Message-ID: <201012021000.oB2A0MAb082206@freefall.freebsd.org>
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>Number: 152771
>Category: ports
>Synopsis: LAPACK 3.3.0 port lacks some routines
>Confidential: no
>Severity: non-critical
>Priority: low
>Responsible: freebsd-ports-bugs
>State: open
>Quarter:
>Keywords:
>Date-Required:
>Class: sw-bug
>Submitter-Id: current-users
>Arrival-Date: Thu Dec 02 10:00:22 UTC 2010
>Closed-Date:
>Last-Modified:
>Originator: Eijiro Shibusawa
>Release: FreeBSD 8.1-RELEASE
>Organization:
>Environment:
FreeBSD myhost.jp 8.1-RELEASE FreeBSD 8.1-RELEASE #0: Mon Jul 19 02:36:49 UTC 2010 root@mason.cse.buffalo.edu:/usr/obj/usr/src/sys/GENERIC amd64
>Description:
The lapack shared library liblapack.so.4 (installed port version 3.3.0)
lacks following single precision routines.
spotrs
sgetrs
sgetrf
The patchfile files/shared-patch-SRC+Makefile fixes gcc's "multiple definition" error,
however it also removes some objects that should be preserved.
>How-To-Repeat:
# cd /usr/ports/math/lapack
# make install clean
$ gcc45 -v
Using built-in specs.
COLLECT_GCC=gcc45
COLLECT_LTO_WRAPPER=/usr/local/libexec/gcc45/gcc/x86_64-portbld-freebsd8.1/4.5.2/lto-wrapper
Target: x86_64-portbld-freebsd8.1
Configured with: ./../gcc-4.5-20101125/configure --enable-lto=no --disable-nls --libdir=/usr/local/lib/gcc45 --libexecdir=/usr/local/libexec/gcc45 --program-suffix=45 --with-as=/usr/local/bin/as --with-gmp=/usr/local --with-gxx-include-dir=/usr/local/lib/gcc45/include/c++/ --with-ld=/usr/local/bin/ld --with-libiconv-prefix=/usr/local --with-system-zlib --disable-rpath --enable-libgcj --prefix=/usr/local --mandir=/usr/local/man --infodir=/usr/local/info/gcc45 --build=x86_64-portbld-freebsd8.1
Thread model: posix
gcc version 4.5.2 20101125 (prerelease) (GCC)
$ nm -D /usr/local/lib/liblapack.so.4 | grep spotrs
U spotrs_
$ nm -D /usr/local/lib/liblapack.so.4 | grep sgetrs
U sgetrs_
$ nm -D /usr/local/lib/liblapack.so.4 | grep sgetrf
U sgetrf_
>Fix:
Patch attached with submission follows:
diff -uNr /usr/ports/math/lapack/./Makefile ./Makefile
--- /usr/ports/math/lapack/./Makefile 2010-11-30 17:41:56.000000000 +0900
+++ ./Makefile 2010-12-02 18:36:56.000000000 +0900
@@ -7,6 +7,7 @@
PORTNAME= lapack
PORTVERSION= 3.3.0
+PORTREVISION= 1
CATEGORIES= math
MASTER_SITES= ftp://ftp.netlib.org/lapack/ \
http://netlib.org/lapack/ \
diff -uNr /usr/ports/math/lapack/./files/shared-patch-SRC+Makefile ./files/shared-patch-SRC+Makefile
--- /usr/ports/math/lapack/./files/shared-patch-SRC+Makefile 2010-11-30 17:41:56.000000000 +0900
+++ ./files/shared-patch-SRC+Makefile 2010-12-02 18:37:09.000000000 +0900
@@ -1,5 +1,23 @@
---- SRC/Makefile.org 2009-04-13 15:49:29.000000000 +0900
-+++ SRC/Makefile 2009-04-13 15:49:36.000000000 +0900
+--- SRC/Makefile.orig 2010-12-02 18:22:06.000000000 +0900
++++ SRC/Makefile 2010-12-02 18:23:32.000000000 +0900
+@@ -98,7 +98,7 @@
+ sgels.o sgelsd.o sgelss.o sgelsx.o sgelsy.o sgeql2.o sgeqlf.o \
+ sgeqp3.o sgeqpf.o sgeqr2.o sgeqr2p.o sgeqrf.o sgeqrfp.o sgerfs.o \
+ sgerq2.o sgerqf.o sgesc2.o sgesdd.o sgesv.o sgesvd.o sgesvx.o \
+- sgetc2.o sgetf2.o sgetri.o \
++ sgetc2.o sgetf2.o sgetrf.o sgetri.o sgetrs.o \
+ sggbak.o sggbal.o sgges.o sggesx.o sggev.o sggevx.o \
+ sggglm.o sgghrd.o sgglse.o sggqrf.o \
+ sggrqf.o sggsvd.o sggsvp.o sgtcon.o sgtrfs.o sgtsv.o \
+@@ -123,7 +123,7 @@
+ sormr3.o sormrq.o sormrz.o sormtr.o spbcon.o spbequ.o spbrfs.o \
+ spbstf.o spbsv.o spbsvx.o \
+ spbtf2.o spbtrf.o spbtrs.o spocon.o spoequ.o sporfs.o sposv.o \
+- sposvx.o spotf2.o spotrf.o spotri.o spstrf.o spstf2.o \
++ sposvx.o spotf2.o spotrf.o spotri.o spotrs.o spstrf.o spstf2.o \
+ sppcon.o sppequ.o \
+ spprfs.o sppsv.o sppsvx.o spptrf.o spptri.o spptrs.o sptcon.o \
+ spteqr.o sptrfs.o sptsv.o sptsvx.o spttrs.o sptts2.o srscl.o \
@@ -146,7 +146,7 @@
sgeequb.o ssyequb.o spoequb.o sgbequb.o \
sbbcsd.o slapmr.o sorbdb.o sorcsd.o
>Release-Note:
>Audit-Trail:
>Unformatted:
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