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* Remove # $FreeBSD$ from Makefiles.Mathieu Arnold2021-04-061-1/+0
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* biology/mummer: fix build on powerpc64 elfv2 and powerpc64lePiotr Kubaj2020-10-252-1/+12
| | | | | | | | | | | Error: src/tigr/postnuc.cc:174:37: error: non-constant-expression cannot be narrowed from type 'signed char' to 'char' in initializer list [-Wc++11-narrowing] Alignments.push_back({ *Mp, CurrCp->dirB } ); Since it may also fix runtime issues on powerpc64 elfv1, bump PORTREVISION. Notes: svn path=/head/; revision=553298
* Bump PORTREVISION for ports depending on the canonical version of GCCGerald Pfeifer2019-07-261-1/+1
| | | | | | | | | | | | | | | | | | as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3 to GCC 9.1 under most circumstances now after revision 507371. This includes ports - with USE_GCC=yes or USE_GCC=any, - with USES=fortran, - using Mk/bsd.octave.mk which in turn features USES=fortran, and - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang, c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib plus, everything INDEX-11 shows with a dependency on lang/gcc9 now. PR: 238330 Notes: svn path=/head/; revision=507372
* Bump PORTREVISION for ports depending on the canonical version of GCCGerald Pfeifer2018-12-121-0/+1
| | | | | | | | | | | | | | | | | | defined via Mk/bsd.default-versions.mk which has moved from GCC 7.4 t GCC 8.2 under most circumstances. This includes ports - with USE_GCC=yes or USE_GCC=any, - with USES=fortran, - using Mk/bsd.octave.mk which in turn features USES=fortran, and - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang, c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib plus, as a double check, everything INDEX-11 showed depending on lang/gcc7. PR: 231590 Notes: svn path=/head/; revision=487272
* biology/mummer: Add USES=compiler:c++11-langYuri Victorovich2018-12-111-1/+1
| | | | Notes: svn path=/head/; revision=487223
* biology/mummer: Update 3.23 -> 4.0.0beta2-2Yuri Victorovich2018-12-113-47/+61
| | | | | | | | | | Port changes: * Moved to github * It now installs itself * It uses yaggo during build Notes: svn path=/head/; revision=487222
* biology/mummer: Take maintainershipYuri Victorovich2018-12-111-1/+1
| | | | Notes: svn path=/head/; revision=487221
* - Fix installing scripts and support binariesWen Heping2017-10-304-8/+39
| | | | | | | | | | - Add LICENSE PR: 223098 Submitted by: mzaki@niid.go.jp Notes: svn path=/head/; revision=453152
* Fix build on mips by properly respecting compiler and flagsDmitry Marakasov2015-08-052-9/+20
| | | | Notes: svn path=/head/; revision=393581
* Cleanup plistBaptiste Daroussin2014-10-201-1/+0
| | | | Notes: svn path=/head/; revision=371237
* biology/mummer: Use OPSYS with OSVERSIONJohn Marino2014-07-191-1/+1
| | | | | | | | | I don't think selecting clang as a function of OSVERSION is generally desired, but if it's going to happen, make sure FreeBSD-specific conditions are limited to FreeBSD by comparing OPSYS first. Notes: svn path=/head/; revision=362284
* Fix compilation on 10+ (clang)Martin Wilke2014-06-272-2/+10
| | | | | | | | | Fix format of WWW entry in pkg-descr PR: 190798 Notes: svn path=/head/; revision=359532
* Reset the 99 ports still listed under sylvio@John Marino2014-06-111-1/+1
| | | | | | | | | | | | | | Sylvio's last commit was 17 months ago, a full 5 months after all of his ports could have been reset per policy. Given the push to complete staging (48 ports are still unstaged, something like 70+ have already been staged by other committers) and given that PRs are automatically assigned but never addressed, it's better just to reset all the ports and PRs so that it's clear to others that these ports are free to maintain. Approved by: portmgr (implicit) Notes: svn path=/head/; revision=357526
* Remove indefinite articles and trailing periods from COMMENT, plusJimmy Olgeni2014-06-091-1/+1
| | | | | | | | | | minor COMMENT typos and surrounding whitespace fixes. Categories A-C. CR: D196 Approved by: portmgr (bapt) Notes: svn path=/head/; revision=357139
* - add stage supportOlli Hauer2014-06-011-16/+4
| | | | Notes: svn path=/head/; revision=356093
* - Convert USE_GMAKE to USESMartin Wilke2014-03-131-1/+1
| | | | Notes: svn path=/head/; revision=348042
* Remove trailing whitespaces from category biologyEmanuel Haupt2014-02-211-1/+1
| | | | Notes: svn path=/head/; revision=345397
* According to the Porter's Handbook (5.12.2.3.) default options must be added toEmanuel Haupt2014-02-101-0/+2
| | | | | | | | | | | | | | OPTIONS_DEFINE. This policy has been implemented only recently that's why we have many ports violating this policy. This patch adds the default options specified in the Porter's Handbook to OPTIONS_DEFINE where they are being used. Ports maintained by gnome@FreeBSD.org, kde@FreeBSD.org and x11@FreeBSD.org have been excluded. Approved by: portmgr (bapt) Notes: svn path=/head/; revision=343634
* Convert biology to MDOCS and MEXAMPLESAdam Weinberger2014-01-031-1/+4
| | | | Notes: svn path=/head/; revision=338550
* Add NO_STAGE all over the place in preparation for the staging support (cat: ↵Baptiste Daroussin2013-09-201-6/+2
| | | | | | | biology) Notes: svn path=/head/; revision=327709
* - Update to 3.23Sylvio Cesar Teixeira2012-01-172-3/+3
| | | | Notes: svn path=/head/; revision=289356
* - Get Rid MD5 supportMartin Wilke2011-03-191-1/+0
| | | | Notes: svn path=/head/; revision=271305
* - Update to 3.22Sylvio Cesar Teixeira2010-03-212-4/+4
| | | | | | | Approved by: itetcu (mentor) Notes: svn path=/head/; revision=251343
* - Update my mail address to FreeBSDSylvio Cesar Teixeira2009-11-271-1/+1
| | | | | | | Approved by: miwi (mentor) Notes: svn path=/head/; revision=244870
* - Update to 3.21.Marcelo Araujo2009-08-282-5/+5
| | | | | | | | | | - Reset maintainer to submitter. PR: ports/138192 Submitted by: Sylvio Cesar <scjamorim@bsd.com.br> Notes: svn path=/head/; revision=240450
* MUMmer is a modular system for the rapid whole genome alignment of finishedMartin Wilke2007-12-144-0/+78
or draft sequence. This package provides an efficient suffix tree library, seed-and-extend alignment, SNP detection, repeat detection, and visualization tools. WWW: http://mummer.sourceforge.net/ PR: ports/118142 Submitted by: Tony Maher Notes: svn path=/head/; revision=203638
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