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# $FreeBSD$
#

    COMMENT = Biology

    SUBDIR += L-Breeder
    SUBDIR += ariadne
    SUBDIR += artemis
    SUBDIR += avida
    SUBDIR += babel
    SUBDIR += biojava
    SUBDIR += blast
    SUBDIR += chemeq
    SUBDIR += clustalw
    SUBDIR += coalesce
    SUBDIR += crimap
    SUBDIR += deft
    SUBDIR += distribfold
    SUBDIR += dna-qc
    SUBDIR += embassy
    SUBDIR += emboss
    SUBDIR += fasta
    SUBDIR += fasta3
    SUBDIR += fastdnaml
    SUBDIR += finchtv
    SUBDIR += flip
    SUBDIR += fluctuate
    SUBDIR += garlic
    SUBDIR += genpak
    SUBDIR += gff2ps
    SUBDIR += gperiodic
    SUBDIR += grappa
    SUBDIR += hmmer
    SUBDIR += kinemage
    SUBDIR += lamarc
    SUBDIR += libgenome
    SUBDIR += lsysexp
    SUBDIR += migrate
    SUBDIR += molden
    SUBDIR += mopac
    SUBDIR += nab
    SUBDIR += ncbi-toolkit
    SUBDIR += ortep3
    SUBDIR += p5-AcePerl
    SUBDIR += p5-Bio-ASN1-EntrezGene
    SUBDIR += p5-Bio-Das
    SUBDIR += p5-bioperl
    SUBDIR += p5-bioperl-devel
    SUBDIR += paml
    SUBDIR += phylip
    SUBDIR += platon
    SUBDIR += povchem
    SUBDIR += primer3
    SUBDIR += psi88
    SUBDIR += py-biopython
    SUBDIR += pymol
    SUBDIR += rasmol
    SUBDIR += recombine
    SUBDIR += ruby-bio
    SUBDIR += seaview
    SUBDIR += seqio
    SUBDIR += sim4
    SUBDIR += tRNAscan-SE
    SUBDIR += t_coffee
    SUBDIR += tinker
    SUBDIR += treepuzzle
    SUBDIR += treeviewx
    SUBDIR += wise
    SUBDIR += xdrawchem
    SUBDIR += xmolwt

.include <bsd.port.subdir.mk>
generated by cgit (git 2.34.1) at 2025-02-16 20:01:04 +0800
ertions'>+0 * - Upadate biology/mopac to version 1.15pawel2014-12-176-41/+17 * Samtools implements various utilities for post-processing alignments in thepawel2014-12-168-0/+169 * HTSlib is an implementation of a unified C library for accessing common filepawel2014-12-156-0/+131 * biology/seqtools: 4.30 -> 4.31pi2014-12-142-3/+3 * - Update to 2.39wen2014-12-072-4/+3 * - Update to 0.58wen2014-12-073-8/+9 * - Update to 3.6.5wen2014-12-063-6/+19 * Update to version 1.15.0.danfe2014-12-033-16/+34 * Change the way Perl modules are installed, update the default Perl to 5.18.mat2014-11-2623-125/+125 * biology/seqtools: 4.29 -> 4.30pi2014-11-042-4/+3 * - Update to version 3.696pawel2014-11-023-30/+18 * Cleanup plistbapt2014-10-2036-644/+0 * - Convert ports from benchmarks/ and biology/ to new USES=pythonmva2014-10-196-16/+10 * - Fix various distinfo errorsak2014-10-161-1/+0 * biology/seqtools: 4.28 -> 4.29pi2014-10-163-4/+3 * Update to version 1.14.2.danfe2014-10-133-4/+13 * - Update to 0.10wen2014-10-125-58/+32 * Fix pkg-plistrene2014-10-081-0/+3 * biology/boinc-simap: clean up pkg-plistrene2014-10-081-7/+5 * Add new port biology/ncbi-blastmarino2014-10-075-0/+3961 * - Update to 2.6.0sunpoet2014-10-041-1/+1 * - any version for RUN_DEPENDSdinoex2014-09-211-2/+2 * - update RUN_DEPENDS for rubygems-dbidinoex2014-09-211-2/+2 * biology/boinc-simap: Deprecate, project shutting down on 2015-01-01rene2014-09-201-0/+3 * devel/glib12 x11-toolkits/gtk12:tijl2014-09-131-1/+1 * Update the default version of GCC in the Ports Collection from GCC 4.7.4gerald2014-09-1118-13/+18 * Fix MASTER_SITESantoine2014-09-051-1/+1 * Second run at cleaning out non staged ports without pending PRbapt2014-09-025-69/+0 * Remove non staged ports without pending PR from b*bapt2014-09-0115-1973/+0 * - Update Unipro UGENE and documentation to version 1.14.0danfe2014-09-017-226/+71 * biology/crux: stage, modernize, add license (BSD[23]CLAUSE), cleanupsrene2014-08-274-46/+63 * - Stagifyamdmi32014-08-268-3/+124 * update ports:pi2014-08-2431-1187/+735 * Fix build. Hopefully it doesn't break the app.adamw2014-08-221-0/+11 * Fix build on -current by un-clobbering LDFLAGS. Also, don'tadamw2014-08-162-4/+13 * - Update to 5.10.2wen2014-08-104-270/+232 * Convert the Python framework bits to USES=python.mva2014-08-091-2/+2 * - Switch to USES=libtool, drop .la filesamdmi32014-08-072-4/+4 * USES=execinfobapt2014-08-052-6/+2 * biology/p5-bioperl-run: 1.6.1 -> 1.6.901, unbreak, stagifypi2014-08-045-217/+296 * biology/p5-bioperl: fix pkg-descr sidenote linkpi2014-08-041-1/+1 * Add a DOCS option.adamw2014-08-042-5/+7 * biology/seqtools: 4.27 -> 4.28pi2014-07-312-3/+3 * Convert a bunch of EXTRACT_SUFX=... into USES=tar:...adamw2014-07-308-16/+8 * Convert a bunch of USE_BZIP2 to USES=tar:bzip2adamw2014-07-302-4/+2 * Rename biology/ patch-xy patches to reflect the files they modify.adamw2014-07-2811-13/+13 * - Update to 1.6.924 [1]wen2014-07-273-10/+11 * Really fix.mat2014-07-261-2/+0 * Fix build.mat2014-07-251-1/+1 * biology/p5-Bio-Graphics: 2.37 -> 2.38pi2014-07-242-3/+3 * Reset maintainership for ports not staged with no pending PRbapt2014-07-246-6/+6 * - Switch to USES=libtool, drop .la filesamdmi32014-07-232-3/+4 * biology/mummer: Use OPSYS with OSVERSIONmarino2014-07-201-1/+1 * biology/garlic: Stage properly to unbreakmarino2014-07-171-7/+5 * Add OPTIONS_DEFINE=DOCS for ports with %%PORTDOCS%% in the plist.adamw2014-07-161-0/+2 * Add DOCS to OPTIONS_DEFINE to ports that check for PORT_OPTIONS:MDOCS.adamw2014-07-152-14/+21 * biology/platon: Unbreak by hosting known distfiles elsewheremarino2014-07-132-6/+9 * biology/seqtools: 4.26 -> 4.27pi2014-07-132-4/+3 * Use gcc on all platforms.adamw2014-07-111-6/+1 * Stagify.vanilla2014-07-071-6/+5 * Missed a NOPORTDOCS.adamw2014-07-051-3/+4 * Remove NOPORTDOCS and NOPORTEXAMPLES from unstaged ports. Stage a couple whileadamw2014-07-051-21/+19 * - Chase database/sqlite3 slib bumpmiwi2014-06-281-0/+1 * Fix compilation on 10+ (clang)miwi2014-06-272-2/+10 * - Mark BROKENwen2014-06-261-0/+2 * Put HOME in MAKE_ARGS to handle pverride of HOME in MAKE_ENV from bsd.port.mkantoine2014-06-251-1/+2 * Use MAKE_CMD instead of GMAKEbapt2014-06-251-2/+2 * Mark as broken: no distinfo providedbapt2014-06-231-2/+1 * Mark as broken: no distinfo providedbapt2014-06-231-3/+1 * Fix shebang line in Perl and Python scripts.rakuco2014-06-201-13/+6 * Mark BROKEN: Fails to configureantoine2014-06-201-0/+2 * biology/blast: Deprecate for removal after 4 September 2014marino2014-06-191-0/+3 * Update to 1.2.10.rakuco2014-06-183-35/+23 * Update to 3.8.31.rakuco2014-06-185-89/+37 * Reset the 99 ports still listed under sylvio@marino2014-06-121-1/+1 * Remove all the bootstrap files (.bs) from the plists.mat2014-06-102-3/+0 * Remove indefinite articles and trailing periods from COMMENT, plusolgeni2014-06-096-6/+6 * Remove all space characters from Makefile assignments.olgeni2014-06-091-1/+1 * Stagify, remove BROKEN.vanilla2014-06-072-112/+107 * - Update to 6.6.0miwi2014-06-055-834/+1183 * Unbreakantoine2014-06-051-1/+1 * - Update to 4.5.2miwi2014-06-042-5/+5 * Update to 0.5.1 snapshot 20100824bapt2014-06-034-8/+49 * - add stage supportohauer2014-06-011-5/+1 * - add stage supportohauer2014-06-011-12/+6 * - add stage supportohauer2014-06-011-22/+16 * - add stage supportohauer2014-06-011-6/+3 * - add stage supportohauer2014-06-011-16/+4 * - add stage supportohauer2014-06-011-21/+8 * - I forgot to svn add a new patchdanilo2014-06-011-0/+10 * - Update from 1.13.5 to 1.13.7danilo2014-06-013-9/+9 * Add DOCS and EXAMPLE options to biology/mafftmilki2014-05-311-0/+2 * - Update to 1.6.923wen2014-05-305-1532/+1440 * biology/embassy: specify post-extraction with ${TAR}marino2014-05-291-1/+1 * Convert to USES=dos2unixbapt2014-05-261-2/+2 * Multiple ports: reset maintainerseadler2014-05-262-2/+2 * - Update to 4.5.1miwi2014-05-213-8/+13 * - Update to 7.149amdmi32014-05-213-32/+35 * Quote ${CC} and similar variables in MAKE_ARGS.tijl2014-05-211-1/+1 * - update to 1.31jadawin2014-05-162-3/+3 * - Update to 5.10.0wen2014-05-133-6/+39 * - Update to 5.9.0 [1]wen2014-05-133-40/+263 * Replace maintainer's email address with one that seems to workantoine2014-05-114-4/+4 * Catch a couple of missing convertsion to :tu/:tlbapt2014-05-051-1/+1 * Support stagebapt2014-05-051-20/+9 * Convert all :U to :tu and :L to :tlbapt2014-05-051-3/+3 * biology/seqtools: 4.25 -> 4.26, fix broken distinfo by upgradingpi2014-05-032-4/+5 * - Stage support [1]wen2014-05-023-1064/+5 * biology/seqtools: 4.24 -> 4.25pi2014-05-022-5/+4 * - Stageswills2014-04-272-1138/+2 * - Update to version 1.13.5miwi2014-04-264-43/+52 * - Un-break fetch stage: the name scheme of the source tarballs has changedriggs2014-04-235-12/+34 * Remove expired ports:rene2014-04-1812-635/+0 * The FreeBSD x11@ and graphics team proudly presentszeising2014-04-174-3/+4 * Remove expired ports:rene2014-04-1313-304/+0 * - Back to the heap, I don't use this port anymoreculot2014-04-121-1/+1 * Mark as broken unstaged perl portsbapt2014-04-092-0/+2 * Support stagebapt2014-04-072-32/+16 * - Update to 0.5.2wen2014-04-062-4/+5 * - Update to 2.3.6wen2014-04-062-4/+5 * - Update to 4.8wen2014-04-053-8/+8 * Unbreakantoine2014-03-281-1/+1 * - Fix PLISTsunpoet2014-03-262-0/+3 * - Update to 2.0sunpoet2014-03-262-3/+3 * Does not build with wx 3.0bapt2014-03-241-3/+3 * Add staging supportpawel2014-03-241-12/+5 * - Add staging supportpawel2014-03-241-19/+9 * - Add staging supportpawel2014-03-242-31/+31 * - Add staging supportpawel2014-03-241-17/+13 * Add staging supportpawel2014-03-242-34/+60 * - Add staging supportpawel2014-03-241-10/+8 * Add staging supportpawel2014-03-241-15/+8 * Add staging supportpawel2014-03-241-8/+5 * Deprecate: Broken for more than 6 monthsantoine2014-03-191-0/+2 * Support stagingehaupt2014-03-141-9/+3 * Support stagingehaupt2014-03-141-2/+2 * - Convert USE_GMAKE to USESmiwi2014-03-1310-11/+10 * Deprecate a few old unmaintained portsantoine2014-03-121-0/+2 * Update the default version of GCC used in the Ports Collection fromgerald2014-03-1112-10/+12 * biology/ssaha: undeprecate, this port fetches and builds fine.rene2014-03-091-3/+0 * Deprecate a few unmaintained ports (leaf ports, non staged and unmaintained s...antoine2014-03-092-0/+4 * Unbreakantoine2014-03-091-1/+0 * Convert b* to USES=zipbapt2014-03-075-10/+5 * Convert to dos2unixbapt2014-03-071-1/+1 * Update to version 1.13.1.danfe2014-03-073-4/+4 * biology/fasta3: Checked new distfile and regenerated distinfo to unbreakmarino2014-03-022-3/+8 * - Update to 35miwi2014-02-274-27/+50 * - Update to 5.0.7miwi2014-02-272-24/+21 * - Stage supportmiwi2014-02-272-21/+18 * - Repocopy print/py-reportlab to print/py-reportlab1tota2014-02-251-2/+2 * Remove trailing whitespaces from category biologyehaupt2014-02-2110-10/+10 * Convert all USE_FORTRAN=yes to "USES=fortran, USE_GCC=yes". In most casestijl2014-02-173-15/+13 * Support stagingehaupt2014-02-161-2/+1 * Support stagingehaupt2014-02-161-14/+7 * - Support stagingehaupt2014-02-161-9/+7 * Support stagingehaupt2014-02-161-8/+3 * Support stagingehaupt2014-02-161-10/+6 * Fix old makeplist bug.mat2014-02-122-1/+2 * According to the Porter's Handbook (5.12.2.3.) default options must be added toehaupt2014-02-1010-0/+20 * - Stage supportmiwi2014-02-102-22/+36 * Update WWWehaupt2014-02-091-1/+1 * Deprecate ports unmaintained for which distillator is not able to find public...bapt2014-02-081-0/+3 * biology/libgenome: Fix build on dragonflymarino2014-02-061-0/+10 * biology/tRNAscan-SE: Fix hardcoded perl pathmarino2014-02-061-0/+11 * biology/wise: Add dragonfly supportmarino2014-02-061-0/+13 * Drop maintainership on those.mat2014-02-061-1/+1 * Drop maintainership BOINC ports, old machine running them gave up.rene2014-02-051-1/+1 * - Stage supportmiwi2014-01-312-33/+31 * - Stage supportmiwi2014-01-311-1/+0 * - Stage supportmiwi2014-01-311-1/+0 * - Convert to PYDISTUTILS_AUTOPLISTmiwi2014-01-312-25/+3 * - Convert to PYDISTUTILS_AUTOPLISTmiwi2014-01-312-11/+3 * Unbreak the fetch: one of the documentation PDF files was rerolled.danfe2014-01-302-4/+2 * - Mark BROKEN because it does not fetchdecke2014-01-301-0/+2 * - fix pkg-plistaz2014-01-302-4/+3 * - Stagify; cleanup Makefile and reorder the knobs a bitdanfe2014-01-291-28/+21 * - Fix build on -currentmiwi2014-01-266-26/+60 * - Update to 1.9sunpoet2014-01-233-8/+7 * Fix properties on pkg-plistbapt2014-01-224-4/+0 * Support stagebapt2014-01-211-5/+4 * Support stagebapt2014-01-211-6/+5 * Support stagebapt2014-01-212-3/+1 * Support stagebapt2014-01-212-13/+26 * Stage supportantoine2014-01-181-15/+7 * - Update to version 1.13.0 and improve FreeBSD support; it also buildsdanfe2014-01-179-140/+378 * Reduce over inclusion of bsd.port.mkbapt2014-01-161-2/+1 * Reduce over inclusion of bsd.port.mkbapt2014-01-161-2/+1 * Reduce over inclusion of bsd.port.mkbapt2014-01-161-2/+1 * Reduce over inclusion of bsd.port.mkbapt2014-01-161-7/+3 * Reduce over inclusion of bsd.port.mkbapt2014-01-161-2/+1 * Support stagebapt2014-01-161-19/+10 * Python cleanup:rene2014-01-143-3/+3