aboutsummaryrefslogtreecommitdiff
path: root/biology/emboss
Commit message (Collapse)AuthorAgeFilesLines
* 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
* - Update to 6.6.0Martin Wilke2014-06-055-834/+1183
| | | | | | | | | | - Stage support PR: 190508 Submitted by: Muhammad Moinur Rahman Notes: svn path=/head/; revision=356575
* Convert all :U to :tu and :L to :tlBaptiste Daroussin2014-05-051-3/+3
| | | | | | | | | | | | | | | | | Since FreeBSD 8.4 and FreeBSD 9.1 make(1) do support :tu and :tl as a replacement for :U and :L (which has been marked as deprecated) bmake which is the default on FreeBSD 10+ only support by default :tu/:tl a hack has been added at the time to support :U and :L to ease migration. This hack is now not necessary anymore Note that this makes the ports tree incompatible with make(1) from FreeBSD 8.3 or earlier With hat: portmgr Notes: svn path=/head/; revision=352986
* In preparation for making libtool generate libraries with a sane name, fix allBaptiste Daroussin2013-12-111-4/+4
| | | | | | | LIB_DEPENDS in biology Notes: svn path=/head/; revision=336171
* Add NO_STAGE all over the place in preparation for the staging support (cat: ↵Baptiste Daroussin2013-09-201-0/+1
| | | | | | | biology) Notes: svn path=/head/; revision=327709
* - update libdg to 2.1.0Dirk Meyer2013-08-091-3/+3
| | | | Notes: svn path=/head/; revision=324437
* Convert from USE_MOTIF to USES=motifBaptiste Daroussin2013-07-091-3/+2
| | | | | | | | | | While here: - trim headers - Remove indefinite article from comment - convert USE_GMAKE to USES=gmake Notes: svn path=/head/; revision=322587
* - Take maintainershipWen Heping2012-10-011-1/+1
| | | | Notes: svn path=/head/; revision=305131
* - Reassign to the heap at maintainer's requestThomas Abthorpe2012-10-011-6/+2
| | | | Notes: svn path=/head/; revision=305130
* - update png to 1.5.10Dirk Meyer2012-06-011-3/+3
| | | | Notes: svn path=/head/; revision=297915
* - remove maintainer tags from pkg-descrEitan Adler2011-10-221-2/+0
| | | | | | | | Approved by: portmgr Approved by: bapt (mentor) Notes: svn path=/head/; revision=284139
* - kick MD5Martin Wilke2011-07-021-1/+0
| | | | Notes: svn path=/head/; revision=276859
* Bump PORTREVISION after open-mofit updateMax Brazhnikov2011-05-021-0/+1
| | | | Notes: svn path=/head/; revision=273475
* Sync to new bsd.autotools.mkAde Lovett2010-12-041-1/+1
| | | | Notes: svn path=/head/; revision=265663
* - Update to 6.2.0Wen Heping2010-04-073-16/+134
| | | | | | | | Submitted by: Wen Heping(myself) Approved by: maintainer(via Email) Notes: svn path=/head/; revision=252349
* - update to 1.4.1Dirk Meyer2010-03-281-3/+3
| | | | | | | | Reviewed by: exp8 run on pointyhat Supported by: miwi Notes: svn path=/head/; revision=251605
* - update to jpeg-8Dirk Meyer2010-02-051-1/+1
| | | | Notes: svn path=/head/; revision=249285
* - Update MASTER_SITESMartin Wilke2009-08-141-2/+1
| | | | | | | | PR: 137750 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=239502
* -Repocopy devel/libtool15 -> libtool22 and libltdl15 -> libltdl22.Jeremy Messenger2009-08-021-1/+1
| | | | | | | | | | | | | | | | | | | | | -Update libtool and libltdl to 2.2.6a. -Remove devel/libtool15 and devel/libltdl15. -Fix ports build with libtool22/libltdl22. -Bump ports that depend on libltdl22 due to shared library version change. -Explain what to do update in the UPDATING. It has been tested with GNOME2, XFCE4, KDE3, KDE4 and other many wm/desktop and applications in the runtime. With help: marcus and kwm Pointyhat-exp: a few times by pav Tested by: pgollucci, "Romain Tartière" <romain@blogreen.org>, and a few MarcusCom CVS users. Also, I might have missed a few. Repocopy by: marcus Approved by: portmgr Notes: svn path=/head/; revision=238781
* - bump all port that indirectly depends on libjpeg and have not yet been ↵Dirk Meyer2009-07-311-0/+1
| | | | | | | | | bumped or updated Requested by: edwin Notes: svn path=/head/; revision=238701
* - Update to 0.1.24Martin Wilke2009-03-143-485/+571
| | | | | | | | | PR: 132527 Submitted by: Wen Heping <wenheping@gmail.com> Approved by: maintainer Notes: svn path=/head/; revision=230069
* - Replace SF with second working master sitePav Lucistnik2008-04-171-1/+1
| | | | | | | Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=211457
* - It seems that upstream removes their distfiles from sourceforge, so addRong-En Fan2008-04-171-1/+2
| | | | | | | | | the download site pointed by their webpage as first choice. Noticed by: pointyhat via pav Notes: svn path=/head/; revision=211422
* - Update to 5.0.0Rong-En Fan2008-04-1314-6770/+363
| | | | | | | | PR: ports/122437 Submitted by: Fernan Aguero <fernan at iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=211152
* - Sort pkg-plist before updating to 5.0.0Rong-En Fan2008-04-131-888/+888
| | | | | | | | PR: ports/122437 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=211151
* - Remove USE_XLIB/USE_X_PREFIX/USE_XPM in favor of USE_XORGMartin Wilke2008-03-231-2/+1
| | | | | | | | | - Bump PORTREVISION Approved by: portmgr (xorg cleanup) Notes: svn path=/head/; revision=209636
* - Welcome X.org 7.2 \o/.Florent Thoumie2007-05-191-0/+1
| | | | | | | | - Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}. - Bump PORTREVISION for ports intalling files in ${X11BASE}. Notes: svn path=/head/; revision=191544
* For EMBOSS:Thierry Thomas2006-03-3117-1270/+7582
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This patch brings EMBOSS up to date with the current version. i. The patches included in files/ are bugfixes for files in EMBOSS-3.0.0 that appeared after the release. They are documented in ftp://emboss.open-bio.org/pub/EMBOSS/fixes/README This is just 'for the record' so that we remember to remove these patches in the next update. ii. EMBOSS is now installed by default in LOCALBASE/emboss This is to avoid CONFLICTS with other ports that install files with the same names. Installing EMBOSS to another PREFIX is also possible. iii. now EMBASSY and EMBOSS both store their distfiles in the same DIST_SUBDIR iv. use built-in PKGMESSAGE and SUB_FILES instead of doing it the old (manual) way For EMBASSY: This update brings embassy in sync with the update of EMBOSS to 3.0.0. Things that changed from previous version of the port: i. embassy now installs by default in $LOCALBASE/emboss (the new default PREFIX for emboss as well). ii. changed DIST_SUBDIR so that all the distfiles are put together with emboss. This makes sense(TM) iii. incorporated new EMBASSY apps (this accounts for the changes in OPTIONS and pkg-plist) iv. removed obsoleted patches Finally, I included a sample text that could go in UPDATING. PR: 93053 Submitted by: Fernan Aguero <fernan (at) iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=158468
* Conversion to a single libtool environment.Ade Lovett2006-02-232-1/+5
| | | | | | | Approved by: portmgr (kris) Notes: svn path=/head/; revision=156749
* Remove CONFLICTS with nss.Joe Marcus Clarke2006-02-021-1/+1
| | | | Notes: svn path=/head/; revision=155108
* SHA256ifyEdwin Groothuis2006-01-221-0/+1
| | | | | | | Approved by: krion@ Notes: svn path=/head/; revision=154141
* Mass-conversion to the USE_AUTOTOOLS New World Order. The code presentAde Lovett2005-11-151-1/+1
| | | | | | | | | | | | | | | | | | | | in bsd.autotools.mk essentially makes this a no-op given that all the old variables set a USE_AUTOTOOLS_COMPAT variable, which is parsed in exactly the same way as USE_AUTOTOOLS itself. Moreover, USE_AUTOTOOLS has already been extensively tested by the GNOME team -- all GNOME 2.12.x ports use it. Preliminary documentation can be found at: http://people.FreeBSD.org/~ade/autotools.txt which is in the process of being SGMLized before introduction into the Porters Handbook. Light blue touch-paper. Run. Notes: svn path=/head/; revision=148323
* - Update to 2.10.0Pav Lucistnik2005-05-293-995/+1221
| | | | | | | | | PR: ports/81579 Submitted by: "Choe, Cheng-Dae" <whitekid@gmail.com> Approved by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=136389
* - Add (or fix) CONFLICTS line. The ports install bin/digest.Sergey Matveychuk2005-02-111-0/+2
| | | | | | | Approved by: portmgr (krion) Notes: svn path=/head/; revision=128541
* - Update to 2.9.0Sergey Matveychuk2004-11-269-1812/+1632
| | | | | | | | | | - Pass maintainership to submitter PR: ports/74333 Submitted by: Fernan Aguero <fernan(at)iib.unsam.edu.ar> Notes: svn path=/head/; revision=122469
* Add missing filesKris Kennaway2004-11-261-0/+11
| | | | Notes: svn path=/head/; revision=122450
* With portmgr hat on, reset inactive maintainer.Mark Linimon2004-11-201-1/+1
| | | | Notes: svn path=/head/; revision=121989
* Fix MASTER_SITES:Volker Stolz2004-06-231-2/+2
| | | | | | | | | | | | - add trailing slash - ftp.ebi.ac.uk only has 2.8.0 PR: ports/67427 Submitted by: Roman Neuhauser Approved by: maintainer timeout Notes: svn path=/head/; revision=112027
* Bump PORTREVISION on all ports that depend on gettext to aid with upgrading.Joe Marcus Clarke2004-02-041-1/+1
| | | | | | | (Part 2) Notes: svn path=/head/; revision=99920
* Define USE_PERL5_BUILD, not erroneous USE_PERL.Trevor Johnson2003-11-201-1/+1
| | | | | | | Submitted by: Oliver Eikemeier Notes: svn path=/head/; revision=94477
* Define USE_PERL to make Perl available for (mostly deprecated)Trevor Johnson2003-11-201-0/+1
| | | | | | | "perl -pi -e" construction. Notes: svn path=/head/; revision=94465
* o Main modificationNorikatsu Shigemura2003-08-181-6/+4
| | | | | | | | | | | | | | | | | | | | | graphics/gd(based on 1.8.4) -> graphics/gd1 graphics/gd2(based on 2.0.15) -> graphics/gd graphics/p5-GD(based on 1.41) -> graphics/p5-GD1 graphics/p5-GD2(based on 2.07) -> graphics/p5-GD japanese/gd -> japanese/gd1 japanese/gd2 -> japanese/gd o Include some feature WITH_XPM(w/, w/o WITHOUT_X11) o Chase this modification o Fix build error [1] PR: ports/54540 Submitted by: Ports Fury Approved by: maintainer (blanket) Reported by: bento via kris [1] Notes: svn path=/head/; revision=87214
* BROKEN: Checksum mismatchKris Kennaway2003-08-071-0/+2
| | | | Notes: svn path=/head/; revision=86470
* o Change library name from libgd to libgd1.Norikatsu Shigemura2003-07-111-1/+2
| | | | | | | | | | | | o Do not install everything except headers and libraries (to avoid conflicting with graphics/gd2) o Fix dependency on new libgd1(for many ports). PR: ports/54100 Submitted by: Ports Fury Notes: svn path=/head/; revision=84696
* Clear moonlight beckons.Ade Lovett2003-03-072-1/+1
| | | | | | | | | | Requiem mors pacem pkg-comment, And be calm ports tree. E Nomini Patri, E Fili, E Spiritu Sancti. Notes: svn path=/head/; revision=77045
* - Unbreak fetching of distfiles. (Needs update as soon as freeze is over.)Johann Visagie2002-09-272-9/+7
| | | | | | | | Submitted by: kris, bento Approved by: Implicitly by first rule of ports freeze, I hope! Notes: svn path=/head/; revision=67164
* BROKEN: Does not fetchKris Kennaway2002-09-201-0/+2
| | | | Notes: svn path=/head/; revision=66901
* - Update to version 2.4.1Johann Visagie2002-07-054-111/+183
| | | | | | | | | | | - Unmark BROKEN - Start adding support for Jemboss Java-based GUI (not active yet) PR: 40198 ; many private requests Submitted by: Tilman Linneweh <tilman@arved.de> (2.4.1 update) Notes: svn path=/head/; revision=62472
* BROKEN: incorrect checksumsKris Kennaway2002-05-171-0/+2
| | | | Notes: svn path=/head/; revision=59311
* Add USE_SUBMAKE, where it might be necessary.Maxim Sobolev2002-03-251-0/+1
| | | | Notes: svn path=/head/; revision=56610