Date: Wed, 18 Dec 2013 18:28:27 +0100 (CET) From: Tijl Coosemans <tijl@FreeBSD.org> To: FreeBSD-gnats-submit@freebsd.org Subject: ports/184974: [patch] biology/clustalw: fix build with clang/libc++ Message-ID: <201312181728.rBIHSRvN011420@kalimero.tijl.coosemans.org> Resent-Message-ID: <201312181730.rBIHU0jr098751@freefall.freebsd.org>
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>Number: 184974 >Category: ports >Synopsis: [patch] biology/clustalw: fix build with clang/libc++ >Confidential: no >Severity: non-critical >Priority: low >Responsible: freebsd-ports-bugs >State: open >Quarter: >Keywords: >Date-Required: >Class: change-request >Submitter-Id: current-users >Arrival-Date: Wed Dec 18 17:30:00 UTC 2013 >Closed-Date: >Last-Modified: >Originator: Tijl Coosemans >Release: FreeBSD 11.0-CURRENT i386 >Organization: >Environment: >Description: - Fix build with clang/libc++. - Support staging. >How-To-Repeat: >Fix: --- clustalw.patch begins here --- Index: biology/clustalw/Makefile =================================================================== --- biology/clustalw/Makefile (revision 336709) +++ biology/clustalw/Makefile (working copy) @@ -10,7 +10,7 @@ MASTER_SITES= ftp://ftp.ebi.ac.uk/pub/so MASTER_SITE_SUBDIR= ${PORTVERSION} MAINTAINER= wen@FreeBSD.org -COMMENT= A multiple alignment program for DNA or proteins +COMMENT= Multiple alignment program for DNA or proteins RESTRICTED= No commercial use. @@ -20,8 +20,7 @@ GNU_CONFIGURE= yes PLIST_FILES= bin/clustalw bin/clustalw2 -NO_STAGE= yes post-install: - ${LN} -sf clustalw2 ${PREFIX}/bin/clustalw + ${LN} -sf clustalw2 ${STAGEDIR}${PREFIX}/bin/clustalw .include <bsd.port.mk> Index: biology/clustalw/files/patch-src-general-VectorOutOfRange.h =================================================================== --- biology/clustalw/files/patch-src-general-VectorOutOfRange.h (revision 0) +++ biology/clustalw/files/patch-src-general-VectorOutOfRange.h (working copy) @@ -0,0 +1,10 @@ +--- src/general/VectorOutOfRange.h.orig 2013-12-18 18:06:35.000000000 +0100 ++++ src/general/VectorOutOfRange.h 2013-12-18 18:07:03.000000000 +0100 +@@ -5,6 +5,7 @@ + */ + #include <stdexcept> + #include <exception> ++#include <string> + namespace clustalw + { + Property changes on: biology/clustalw/files/patch-src-general-VectorOutOfRange.h ___________________________________________________________________ Added: fbsd:nokeywords ## -0,0 +1 ## +yes \ No newline at end of property Added: svn:eol-style ## -0,0 +1 ## +native \ No newline at end of property Added: svn:mime-type ## -0,0 +1 ## +text/plain \ No newline at end of property --- clustalw.patch ends here --- >Release-Note: >Audit-Trail: >Unformatted:
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