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* Convert a bunch of EXTRACT_SUFX=... into USES=tar:...Adam Weinberger2014-07-291-2/+1
| | | | | | | Approved by: portmgr (not really, but touches unstaged ports) Notes: svn path=/head/; revision=363374
* Fix shebang line in Perl and Python scripts.Raphael Kubo da Costa2014-06-201-13/+6
| | | | | | | | PR: 191146 Submitted by: mzaki@m.u-tokyo.ac.jp (maintainer) Notes: svn path=/head/; revision=358567
* Update to 1.2.10.Raphael Kubo da Costa2014-06-173-35/+23
| | | | | | | | PR: 191129 Submitted by: mzaki@m.u-tokyo.ac.jp (maintainer) Notes: svn path=/head/; revision=358183
* - add stage supportOlli Hauer2014-06-011-12/+6
| | | | Notes: svn path=/head/; revision=356099
* - Convert USE_GMAKE to USESMartin Wilke2014-03-131-2/+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 Daroussin2013-09-201-5/+2
| | | | | | | biology) Notes: svn path=/head/; revision=327709
* - convert to the new perl5 frameworkAndrej Zverev2013-09-071-1/+2
| | | | | | | Approved by: portmgr (bapt@, blanket) Notes: svn path=/head/; revision=326575
* Update to 1.1.04Julien Laffaye2011-06-095-126/+35
| | | | | | | | | PR: ports/157527 Submitted by: Motomichi Matsuzaki <mzaki@m.u-tokyo.ac.jp> Approved by: bapt (mentor) Notes: svn path=/head/; revision=275282
* - Get Rid MD5 supportMartin Wilke2011-03-191-1/+0
| | | | Notes: svn path=/head/; revision=271305
* Velvet is a de novo genomic assembler specially designed for short readDmitry Marakasov2009-11-076-0/+243
sequencing technologies, such as Solexa or 454, developed by Daniel Zerbino and Ewan Birney at the European Bioinformatics Institute (EMBL-EBI). Citation: Velvet: algorithms for de novo short read assembly using de Bruijn graphs. D.R. Zerbino and E. Birney. Genome Research 18: 821-829 (2008) WWW: http://www.ebi.ac.uk/~zerbino/velvet/ PR: 140147 Submitted by: Motomichi Matsuzaki <mzaki@m.u-tokyo.ac.jp> Notes: svn path=/head/; revision=243919
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