From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: (qmail 119752 invoked by alias); 27 Jan 2016 06:45:18 -0000 Mailing-List: contact cygwin-help@cygwin.com; run by ezmlm Precedence: bulk List-Id: List-Subscribe: List-Archive: List-Post: List-Help: , Sender: cygwin-owner@cygwin.com Mail-Followup-To: cygwin@cygwin.com Received: (qmail 119731 invoked by uid 89); 27 Jan 2016 06:45:18 -0000 Authentication-Results: sourceware.org; auth=none X-Virus-Found: No X-Spam-SWARE-Status: No, score=-1.8 required=5.0 tests=AWL,BAYES_00,FREEMAIL_FROM,RCVD_IN_DNSWL_LOW,SPF_PASS autolearn=ham version=3.3.2 spammy=532, 370, family, HImportance:Normal X-HELO: mail-pf0-f180.google.com Received: from mail-pf0-f180.google.com (HELO mail-pf0-f180.google.com) (209.85.192.180) by sourceware.org (qpsmtpd/0.93/v0.84-503-g423c35a) with (AES128-GCM-SHA256 encrypted) ESMTPS; Wed, 27 Jan 2016 06:45:16 +0000 Received: by mail-pf0-f180.google.com with SMTP id q63so115627335pfb.1 for ; Tue, 26 Jan 2016 22:45:16 -0800 (PST) X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20130820; h=x-gm-message-state:message-id:from:to:subject:date:importance :content-type:content-transfer-encoding:mime-version; bh=Bvw4AluY5S0yah/Gsaa8/VRwWSxcreFp7QfRrK/DWAw=; b=QoTBKUF7ebxmxaL2Q64fMf2nsrwE5K7JevvZ4+VOwidoCHr5HU8ie9FTpx1svm/gvk z9PYFF6QrKCKBJolTZ5qflDzdhfVAyQCyZZ1++PIMvQLLaY0C10A5z47mo5soOOCRDvP 9b41JSnUjYf0ZSaFwzXjmInGIAMRRhX2kUaS8Q7Y4Vhu1NQSmmtMWq8psc89SA3lxEfd T7c+Zf9gbJUEPO8M1jFKHmTPTw+Gy9UhTMUjo0RnBqlbI268Kg+4z72Y47FfboBANpiD UO/XRbyU7m6nHcFIgaILknvYc96bMP9ZJWVbypJqkXLmjF2YecNLi1oLunVcdzasY+uf a53w== X-Gm-Message-State: AG10YOTtK5TYTNnnFp3Mdq+ApqkU2qkieQXFT3e4wOTSCf4et1T7GFSxVUyAVEeP9Uz94A== X-Received: by 10.98.68.73 with SMTP id r70mr40281045pfa.12.1453877114451; Tue, 26 Jan 2016 22:45:14 -0800 (PST) Received: from mail.hotmail.com (col004-wss1s1.hotmail.com. [157.56.23.8]) by smtp.gmail.com with ESMTPSA id ah10sm6133907pad.23.2016.01.26.22.45.13 for (version=TLSv1/SSLv3 cipher=OTHER); Tue, 26 Jan 2016 22:45:13 -0800 (PST) Received: from BAY175-W38 ([157.56.23.7]) by COL004-WSS1S1.hotmail.com over TLS secured channel with Microsoft SMTPSVC(7.5.7601.23008); Tue, 26 Jan 2016 22:45:12 -0800 X-TMN: [JoLr30ri+p+UfH/UOoZ4HVKDdwuOXGiI] Message-ID: From: Robert May To: "cygwin@cygwin.com" Subject: Re: tree puzzle error running Configure after installing update 2.4.1.1 to Cygwin64 Date: Wed, 27 Jan 2016 08:52:00 -0000 Content-Type: text/plain; charset="Windows-1252" Content-Transfer-Encoding: quoted-printable MIME-Version: 1.0 X-SW-Source: 2016-01/txt/msg00376.txt.bz2 cyg Simple OK replaced the two files config.guess and config.sub with a 2016 timestamp= and ran make again. like samtools it has a couple of warning for terms like=20 But it does not get the job done. the problem area seems to be in this area of make ppuzzle.c: In function =91PP_Update_Rates=92: ppuzzle.c:258:38: error: =91PP_UPDATERATES=92 undeclared (first use in this= function) =A0=A0 MPI_Send(&dummy, 0, MPI_INT, dest, PP_UPDATERATES, PP_Comm); two pages later ppuzzle.c: In function =91PP_RecvData=92: ppuzzle.c:905:3: warning: =91MPI_Address=92 is deprecated (declared at /usr= /include/mpi.h:1183): MPI_Address is superseded by MPI_Get_address in MPI-2= .0 [-Wdeprecated-declarations] =A0=A0 MPI_Address(&(Seqpat[0][0]), &(Dtypeaddr[0])); this continues back and forth till we get to the end with : recipe for target 'ppuzzle' failed make[3]: *** [ppuzzle] Error 1 make[3]: Leaving directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/src' Makefile:532: recipe for target 'all-recursive' failed make[2]: *** [all-recursive] Error 1 make[2]: Leaving directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/src' Makefile:397: recipe for target 'all' failed make[1]: *** [all] Error 2 make[1]: Leaving directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/src' Makefile:370: recipe for target 'all-recursive' failed make: *** [all-recursive] Error 1 Robert@DESKTOP-14EL82S /usr/local/bin/tree-puzzle-5.3.rc16-windows I also ran make check Robert@DESKTOP-14EL82S /usr/local/bin/tree-puzzle-5.3.rc16-windows $ make check Making check in src make[1]: Entering directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/sr= c' Making check in sprng make[2]: Entering directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/sr= c/sprng' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/src= /sprng' make[2]: Entering directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/sr= c' cd sprng && make mlfg.o makeseed.o memory.o checkid.o store.o make[3]: Entering directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/sr= c/sprng' make[3]: 'mlfg.o' is up to date. make[3]: 'makeseed.o' is up to date. make[3]: 'memory.o' is up to date. make[3]: 'checkid.o' is up to date. make[3]: 'store.o' is up to date. make[3]: Leaving directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/src= /sprng' gcc=A0 -g -O2=A0=A0 sgamma.o sml1.o sml2.o smlparam.o smodel1.o smodel2.o s= puzzle1.o spuzzle2.o spstep.o sutil.o sconsensus.o streesort.o streetest.o= =A0 sprng/mlfg.o sprng/makeseed.o sprng/memory.o sprng/checkid.o sprng/stor= e.o -lm=A0 -o puzzle.exe gcc -g -O2=A0=A0=A0 ppuzzle.c=A0=A0 -o ppuzzle ppuzzle.c: In function =91PP_Update_Rates=92: ppuzzle.c:258:38: error: =91PP_UPDATERATES=92 undeclared (first use in this= function) =A0=A0 MPI_Send(&dummy, 0, MPI_INT, dest, PP_UPDATERATES, PP_Comm); I can send full make and make check runs if needed help Bob =A0Bob May DNA Projects I2b L415, I2c L596 HG, Spriggs of Cleve SA Family & Tyler Surn= ame and ISOGG=A0YTree=20=09=09=20=09=20=20=20=09=09=20=20 -- Problem reports: http://cygwin.com/problems.html FAQ: http://cygwin.com/faq/ Documentation: http://cygwin.com/docs.html Unsubscribe info: http://cygwin.com/ml/#unsubscribe-simple