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non port: head/biology/phrap/Makefile
SVNWeb

Number of commits found: 6

Sat, 23 Aug 2014
[ 18:04 pi ] Original commit   Revision:365765
365765 biology/consed/Makefile
365765 biology/consed/distinfo
365765 biology/consed/files/patch-installConsed.perl
365765 biology/consed/files/patch-scripts_addReads2Consed.perl
365765 biology/consed/files/patch-scripts_determineReadTypes.perl
365765 biology/consed/files/patch-scripts_phredPhrap
365765 biology/consed/files/pkg-message.in
365765 biology/consed/pkg-plist.examples
365765 biology/phrap/Makefile
365765 biology/phrap/distinfo

(Only the first 10 of 31 ports in this commit are shown above. View all ports for this commit)
update ports:
	biology/phrab
	biology/phred
	biology/consed

Although these programs are licensed freely for academic and nonprofit
purposes, users have to contact the authors to obtain the tarballs.

PR:		191336
Submitted by:	mzaki@m.u-tokyo.ac.jp (maintainer)
Sat, 10 May 2014
[ 18:07 antoine ] Original commit   Revision:353593
353593 biology/consed/Makefile
353593 biology/phd2fasta/Makefile
353593 biology/phrap/Makefile
353593 biology/phred/Makefile
Replace maintainer's email address with one that seems to work

With hat:	portmgr
Fri, 3 Jan 2014
[ 15:46 adamw ] Original commit   Revision:338550
338550 biology/biojava/Makefile
338550 biology/blast/Makefile
338550 biology/consed/Makefile
338550 biology/finchtv/Makefile
338550 biology/mafft/Makefile
338550 biology/mummer/Makefile
338550 biology/njplot/Makefile
338550 biology/p5-bioperl-run/Makefile
338550 biology/p5-bioperl/Makefile
338550 biology/paml/Makefile

(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 ] Original commit   Revision:327709
327709 biology/ariadne/Makefile
327709 biology/artemis/Makefile
327709 biology/avida/Makefile
327709 biology/babel/Makefile
327709 biology/biococoa/Makefile
327709 biology/biojava/Makefile
327709 biology/blast/Makefile
327709 biology/blat/Makefile
327709 biology/boinc-simap/Makefile
327709 biology/chemeq/Makefile

(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)
Sun, 25 May 2008
[ 23:05 edwin ] Original commit 
1.2 biology/consed/Makefile
1.2 biology/phd2fasta/Makefile
1.2 biology/phrap/Makefile
1.2 biology/phred/Makefile
Teach the building cluster that these ports are not to be build
Sat, 24 May 2008
[ 07:03 edwin ] Original commit 
1.100 biology/Makefile
1.1 biology/phrap/Makefile
1.1 biology/phrap/distinfo
1.1 biology/phrap/files/patch-makefile
1.1 biology/phrap/pkg-descr
New port: biology/consed viewing and editing workbench for sequence
assembly

        Consed is a tool for viewing, editing, and finishing sequence
        assemblies.

        The port is constituted of 4 parts:
        biology/phred: base caller with quality evaluation
        biology/phrap: sequence assembler for shotgun sequencing
        biology/consed: workbench
        biology/phd2fasta: small utility

        All these can be used separately; however, most function
        of consed depends on the others.

        Although these programs are licensed freely for academic
        and nonprofit purposes, users have to contact the authors
        to get the softwares.
        Phred (including phd2fasta) and phrap are emailed,
        and consed can be downloaded to a restricted IP address.
        For commercial users, the licensing fee is ca. $10,000 at
        the time of writing.

PR:             ports/118548
Submitted by:   Motomichi Matsuzaki <mzaki@biol.s.u-tokyo.ac.jp>

Number of commits found: 6

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