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non port: biology/velvet/Makefile
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Number of commits found: 18

Wed, 20 Jul 2022
[ 14:20 Tobias C. Berner (tcberner) search for other commits by this committer ]    commit hash:37526bbd4e50616d87f70e1c788ae4895d88d671  37526bb  (Only the first 10 of 82 ports in this commit are shown above. View all ports for this commit)
biology: remove 'Created by' lines

A big Thank You to the original contributors of these ports:

  *  Aaron Dalton <aaron@FreeBSD.org>
  *  Akinori MUSHA aka knu <knu@idaemons.org>
  *  Andrey Zakhvatov
  *  Bob Zimmermann <rpz@cse.wustl.edu>
  *  Camson Huynh <chuynh@biolateral.com.au>
  *  Dan Siercks <dsiercks@uwm.edu>
  *  Fernan Aguero <fernan@iib.unsam.edu.ar>
  *  Hannes Hauswedell <h2+fbsdports@fsfe.org>
  *  J. Bacon <jwb@FreeBSD.org>
  *  Jason Bacon <jwb@FreeBSD.org>
  *  Jeremy <karlj000@unbc.ca>
(Only the first 15 lines of the commit message are shown above View all of this commit message)
Tue, 6 Apr 2021
[ 14:31 Mathieu Arnold (mat) search for other commits by this committer ]    commit hash:305f148f482daf30dcf728039d03d019f88344eb  305f148  (Only the first 10 of 29333 ports in this commit are shown above. View all ports for this commit)
Remove # $FreeBSD$ from Makefiles.
Thu, 11 Jan 2018
[ 18:09 danfe search for other commits by this committer ] Original commit   Revision:458761 (Only the first 10 of 18 ports in this commit are shown above. View all ports for this commit)
- Convert to option helper install target (add OPTIONS_DEFINE=DOCS
  when it was missing)
- Invoke INSTALL_DATA where appropriate instead of INSTALL_MAN
- Fix some whitespace and formatting bugs along the way
Mon, 19 Jan 2015
[ 17:43 marino search for other commits by this committer ] Original commit   Revision:377443
Designatate 4 ports as unsafe for parallel building

All had similar errors that it couldn't find something during the build,
yet built on a subsequent pass with no adjustments.  Most I've seen before
on previous bulk runs.
Wed, 26 Nov 2014
[ 13:08 mat search for other commits by this committer ] Original commit   Revision:373448 (Only the first 10 of 10077 ports in this commit are shown above. View all ports for this commit)
Change the way Perl modules are installed, update the default Perl to 5.18.

Before, we had:

  site_perl :           lib/perl5/site_perl/5.18
  site_perl/perl_arch : lib/perl5/site_perl/5.18/mach
  perl_man3 :           lib/perl5/5.18/man/man3

Now we have:

  site_perl : lib/perl5/site_perl
  site_arch : lib/perl5/site_perl/mach/5.18
  perl_man3 : lib/perl5/site_perl/man/man3

Modules without any .so will be installed at the same place regardless of the
(Only the first 15 lines of the commit message are shown above View all of this commit message)
Sun, 19 Oct 2014
[ 07:38 mva search for other commits by this committer ] Original commit   Revision:371171
- Convert ports from benchmarks/ and biology/ to new USES=python

Approved by:	portmgr (implicit)
Tue, 29 Jul 2014
[ 19:11 adamw search for other commits by this committer ] Original commit   Revision:363374 (Only the first 10 of 436 ports in this commit are shown above. View all ports for this commit)
Convert a bunch of EXTRACT_SUFX=... into USES=tar:...

Approved by:	portmgr (not really, but touches unstaged ports)
Fri, 20 Jun 2014
[ 12:54 rakuco search for other commits by this committer ] Original commit   Revision:358567
Fix shebang line in Perl and Python scripts.

PR:		191146
Submitted by:	mzaki@m.u-tokyo.ac.jp (maintainer)
Tue, 17 Jun 2014
[ 21:39 rakuco search for other commits by this committer ] Original commit   Revision:358183
Update to 1.2.10.

PR:		191129
Submitted by:	mzaki@m.u-tokyo.ac.jp (maintainer)
Sun, 1 Jun 2014
[ 11:33 ohauer search for other commits by this committer ] Original commit   Revision:356099
- add stage support
Thu, 13 Mar 2014
[ 07:41 miwi search for other commits by this committer ] Original commit   Revision:348042
- Convert USE_GMAKE to USES
Fri, 21 Feb 2014
[ 13:35 ehaupt search for other commits by this committer ] Original commit   Revision:345397
Remove trailing whitespaces from category biology
Mon, 10 Feb 2014
[ 13:54 ehaupt search for other commits by this committer ] Original commit   Revision:343634 (Only the first 10 of 581 ports in this commit are shown above. View all ports for this commit)
According to the Porter's Handbook (5.12.2.3.) default options must be added to
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)
Fri, 3 Jan 2014
[ 15:46 adamw search for other commits by this committer ] Original commit   Revision:338550 (Only the first 10 of 14 ports in this commit are shown above. View all ports for this commit)
Convert biology to MDOCS and MEXAMPLES
Fri, 20 Sep 2013
[ 15:55 bapt search for other commits by this committer ] Original commit   Revision:327709 (Only the first 10 of 94 ports in this commit are shown above. View all ports for this commit)
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
Sat, 7 Sep 2013
[ 07:44 az search for other commits by this committer ] Original commit   Revision:326575 (Only the first 10 of 19 ports in this commit are shown above. View all ports for this commit)
- convert to the new perl5 framework

Approved by:	portmgr (bapt@, blanket)
Thu, 9 Jun 2011
[ 16:33 jlaffaye search for other commits by this committer ] Original commit 
Update to 1.1.04

PR:             ports/157527
Submitted by:   Motomichi Matsuzaki <mzaki@m.u-tokyo.ac.jp>
Approved by:    bapt (mentor)
Sat, 7 Nov 2009
[ 01:23 amdmi3 search for other commits by this committer ] Original commit 
Velvet is a de novo genomic assembler specially designed for short read
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>

Number of commits found: 18