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| author | Edwin Groothuis <edwin@FreeBSD.org> | 2008-05-24 07:04:45 +0000 |
|---|---|---|
| committer | Edwin Groothuis <edwin@FreeBSD.org> | 2008-05-24 07:04:45 +0000 |
| commit | 5081af2c649bf6005a0472de4f6dfe99b6786f36 (patch) | |
| tree | f9a70ac725d6822494225b59eb82fcd00bde8e55 /biology/phred/files | |
| parent | c65af41a3b0e8a047f8159fa8fbd0bc8473e69e4 (diff) | |
| download | ports-5081af2c649bf6005a0472de4f6dfe99b6786f36.tar.gz ports-5081af2c649bf6005a0472de4f6dfe99b6786f36.zip | |
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>
Notes
Notes:
svn path=/head/; revision=213596
Diffstat (limited to 'biology/phred/files')
| -rw-r--r-- | biology/phred/files/patch-Makefile | 13 |
1 files changed, 13 insertions, 0 deletions
diff --git a/biology/phred/files/patch-Makefile b/biology/phred/files/patch-Makefile new file mode 100644 index 000000000000..244e284a9f94 --- /dev/null +++ b/biology/phred/files/patch-Makefile @@ -0,0 +1,13 @@ +--- Makefile.orig 2002-07-27 07:22:10.000000000 +0900 ++++ Makefile 2007-12-06 16:41:35.000000000 +0900 +@@ -12,8 +12,8 @@ + + # UNIX specific definitions (default) + # +-CC= cc +-CFLAGS= -O -DANSI_C $(LXFLAGS) ++CC?= cc ++CFLAGS+= -DANSI_C $(LXFLAGS) + CLIB= -lm + + # Windows 'nmake' specific definitions |