| .. |
|
ariadne
|
Cleanup $() variables in ports Makefiles.
|
2016-07-20 15:33:20 +00:00 |
|
artemis
|
- Fix shebangs
|
2017-04-21 16:28:25 +00:00 |
|
avida
|
Mark various ports as broken on armv6: invokes x86 asm.
|
2017-02-26 12:56:41 +00:00 |
|
babel
|
|
|
|
bcftools
|
biology/{htslib|samtools|bcftools}: 1.3 -> 1.3.1
|
2016-05-26 20:28:55 +00:00 |
|
bedtools
|
biology/bedtools is not jobs safe
|
2016-08-22 04:32:18 +00:00 |
|
biococoa
|
|
|
|
biojava
|
- Mark it BROKEN
|
2016-10-28 01:49:40 +00:00 |
|
blat
|
biology/blat: Fix build on DF (taken from dports)
|
2016-12-18 04:46:53 +00:00 |
|
bowtie
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
bowtie2
|
Update devel/tbb to 2017.5
|
2017-03-07 12:44:41 +00:00 |
|
bwa
|
Mark various ports broken on aarch64 and armv6.
|
2017-01-31 03:40:46 +00:00 |
|
cd-hit
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
cdbfasta
|
Update WWW: SF redirects to https://sourceforge.net/projects/<PROJECT_NAME>/
|
2017-01-20 20:33:30 +00:00 |
|
chemeq
|
biology/chemeq: fix build on GCC (taken from dports)
|
2016-12-18 04:22:26 +00:00 |
|
clustalw
|
Remove useless WRKSRC definitions.
|
2016-05-25 15:43:34 +00:00 |
|
consed
|
- Replace Mk/bsd.linux-apps.mk and Mk/bsd.linux-rpm.mk with
|
2016-09-05 19:23:42 +00:00 |
|
crux
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
diamond
|
biology/diamond: Update to version 0.8.38
|
2017-04-21 14:46:07 +00:00 |
|
emboss
|
- update libgd to 2.2.2
|
2016-07-20 09:33:31 +00:00 |
|
fasta
|
${RM} already has -f.
|
2016-10-21 12:51:40 +00:00 |
|
fasta3
|
- Fix trailing whitespace in pkg-messages
|
2016-05-19 11:09:14 +00:00 |
|
fastdnaml
|
Convert LICENSE= "GPLxx # or later" to "GPLxx+"
|
2016-01-12 16:20:31 +00:00 |
|
fastool
|
Never set WRKSRC when using USE_GITHUB.
|
2017-01-03 18:12:13 +00:00 |
|
fasttree
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
fastx-toolkit
|
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
|
2016-04-01 13:29:15 +00:00 |
|
fluctuate
|
|
|
|
garlic
|
|
|
|
gff2ps
|
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
|
2016-04-01 13:29:15 +00:00 |
|
gmap
|
Mark various ports as broken on armv6: invokes x86 asm.
|
2017-02-26 12:56:41 +00:00 |
|
gperiodic
|
Remove libintl.so.9 compatibility link that was added in r374303 to
|
2016-12-08 19:52:19 +00:00 |
|
grappa
|
- Fix trailing whitespace in pkg-descrs, categories [a-f]*
|
2016-05-19 10:21:23 +00:00 |
|
hmmer
|
|
|
|
htslib
|
Use USES=pathfix where applicable.
|
2016-10-21 15:21:13 +00:00 |
|
iolib
|
Fix USE_GITHUB's GH_TAGNAME usage.
|
2017-02-28 08:33:44 +00:00 |
|
jalview
|
- Fix trailing whitespace in pkg-descrs, categories [a-f]*
|
2016-05-19 10:21:23 +00:00 |
|
jellyfish
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
lagan
|
- Fix trailing whitespace in pkg-messages
|
2016-05-19 11:09:14 +00:00 |
|
lamarc
|
biology/lamarc: Fix build on DF (taken from dports)
|
2016-12-18 04:34:33 +00:00 |
|
libgtextutils
|
Use USES=pathfix where applicable.
|
2016-10-21 15:21:13 +00:00 |
|
libsbml
|
Cleanup no longer needed CHMOD usage after r424898.
|
2016-11-02 22:45:14 +00:00 |
|
linux-foldingathome
|
- Replace Mk/bsd.linux-apps.mk and Mk/bsd.linux-rpm.mk with
|
2016-09-05 19:23:42 +00:00 |
|
mafft
|
- Fix trailing whitespace in pkg-descrs, categories [a-f]*
|
2016-05-19 10:21:23 +00:00 |
|
mapm3
|
- Fix trailing whitespace in pkg-descrs, categories [a-f]*
|
2016-05-19 10:21:23 +00:00 |
|
migrate
|
- Switch to options helpers
|
2016-04-17 10:15:59 +00:00 |
|
molden
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
mopac
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
mrbayes
|
|
|
|
mummer
|
|
|
|
muscle
|
Mark various leaf ports broken on aarch64, and, where appropriate, other
|
2016-11-11 09:31:02 +00:00 |
|
ncbi-blast+
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
ncbi-toolkit
|
Remove libjpeg.so.11 compatibility link that was added in r374303 to
|
2016-12-08 16:39:11 +00:00 |
|
njplot
|
biology/njplot: Add site in MASTER_SITES because package builders are
|
2016-11-28 15:19:42 +00:00 |
|
p5-AcePerl
|
Move -fPIC to where Linux puts it so it is limited to a single library.
|
2017-02-13 22:43:58 +00:00 |
|
p5-Bio-ASN1-EntrezGene
|
- Add LICENSE
|
2016-12-18 15:25:13 +00:00 |
|
p5-Bio-Coordinate
|
- Add p5-Bio-Coordinate 1.007001
|
2016-12-19 15:54:39 +00:00 |
|
p5-Bio-Das
|
- Add LICENSE
|
2016-12-18 15:25:18 +00:00 |
|
p5-Bio-Das-Lite
|
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
|
2016-04-01 13:29:15 +00:00 |
|
p5-Bio-GFF3
|
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
|
2016-04-01 13:29:15 +00:00 |
|
p5-Bio-Glite
|
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
|
2016-04-01 13:29:15 +00:00 |
|
p5-Bio-Graphics
|
Bump PORTREVISION for ports affected by the fix the last commit.
|
2017-01-31 16:21:45 +00:00 |
|
p5-Bio-MAGETAB
|
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
|
2016-04-01 13:29:15 +00:00 |
|
p5-Bio-NEXUS
|
- Fix trailing whitespace in pkg-descrs, categories [a-f]*
|
2016-05-19 10:21:23 +00:00 |
|
p5-Bio-Phylo
|
- Add LICENSE_FILE
|
2016-12-18 15:25:22 +00:00 |
|
p5-Bio-SCF
|
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
|
2016-04-01 13:29:15 +00:00 |
|
p5-BioPerl
|
Bump PORTREVISION for ports affected by the fix the last commit.
|
2017-01-31 16:21:45 +00:00 |
|
p5-BioPerl-Run
|
Bump PORTREVISION for ports affected by the fix the last commit.
|
2017-01-31 16:21:45 +00:00 |
|
p5-transdecoder
|
Never set WRKSRC when using USE_GITHUB.
|
2017-01-03 18:12:13 +00:00 |
|
paml
|
Cleanup no longer needed CHMOD usage after r424898.
|
2016-11-02 22:45:14 +00:00 |
|
phrap
|
|
|
|
phred
|
|
|
|
phylip
|
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
|
2016-04-01 13:29:15 +00:00 |
|
phyml
|
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
|
2016-04-01 13:29:15 +00:00 |
|
plink
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
plinkseq
|
biology/plinkseq: unbreak with clang 4.0
|
2017-02-27 14:09:25 +00:00 |
|
primer3
|
|
|
|
protomol
|
biology/protomol: Support build with C++11 (taken from dports)
|
2016-12-18 05:34:42 +00:00 |
|
psi88
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
py-biom-format
|
Update email address to jrm@FreeBSD.org for ports that I maintain
|
2016-09-23 21:42:02 +00:00 |
|
py-biopython
|
- Update to 1.68
|
2016-09-23 01:54:45 +00:00 |
|
pycogent
|
- Update to 1.9 [1]
|
2016-08-08 11:21:04 +00:00 |
|
pyfasta
|
- Fix trailing whitespace in pkg-descrs, categories [a-f]*
|
2016-05-19 10:21:23 +00:00 |
|
python-nexus
|
- Update to 1.42
|
2017-03-01 07:00:37 +00:00 |
|
recombine
|
When there is a do-install target, do not use a post-install target, do
|
2016-07-19 11:04:13 +00:00 |
|
ruby-bio
|
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
|
2016-04-01 13:29:15 +00:00 |
|
rubygem-bio
|
Update to 1.5.1
|
2017-02-06 23:03:17 +00:00 |
|
samtools
|
biology/{htslib|samtools|bcftools}: 1.3 -> 1.3.1
|
2016-05-26 20:28:55 +00:00 |
|
seaview
|
biology/seaview: Update version 4.6=>4.6.1
|
2017-04-11 18:58:18 +00:00 |
|
seqan
|
- Update biology/seqan and bilogy/seqan-apps to version 2.2.0 [1]
|
2016-09-14 19:38:58 +00:00 |
|
seqan1
|
When there is a do-install target, do not use a post-install target, do
|
2016-07-19 11:04:13 +00:00 |
|
seqan-apps
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
seqio
|
|
|
|
seqtools
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
sim4
|
|
|
|
slclust
|
Update WWW: SF redirects to https://sourceforge.net/projects/<PROJECT_NAME>/
|
2017-01-20 20:33:30 +00:00 |
|
ssaha
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
t_coffee
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
tinker
|
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
|
2017-04-01 15:23:30 +00:00 |
|
treepuzzle
|
|
|
|
treeviewx
|
Mark the remaining ports depending on Google Code as DEPRECATED, with an
|
2017-03-03 16:00:19 +00:00 |
|
trimmomatic
|
Trimmomatic performs a variety of useful trimming tasks for illumina
|
2016-03-17 08:21:14 +00:00 |
|
tRNAscan-SE
|
Prevent collision with getline(3)
|
2016-05-13 18:38:34 +00:00 |
|
ugene
|
- Remove always-true/false conditions after FreeBSD 9, 10.1, 10.2 EOL
|
2017-01-09 13:16:49 +00:00 |
|
vcftools
|
Assume "pkg-config zlib" works after 9.x reached EOL
|
2017-01-03 17:06:49 +00:00 |
|
velvet
|
|
|
|
wise
|
Remove libintl.so.9 compatibility link that was added in r374303 to
|
2016-12-08 19:52:19 +00:00 |
|
xmolwt
|
Remove libintl.so.9 compatibility link that was added in r374303 to
|
2016-12-08 19:52:19 +00:00 |
|
Makefile
|
Move devel/rubygem-bio to biology/rubygem-bio
|
2017-02-05 04:26:56 +00:00 |
