forked from Lainports/freebsd-ports
5081af2c64
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. $10,000 at the time of writing. PR: ports/118548 Submitted by: Motomichi Matsuzaki <mzaki@biol.s.u-tokyo.ac.jp>
27 lines
779 B
Text
27 lines
779 B
Text
--- makefile.orig 1999-03-11 15:13:20.000000000 +0900
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+++ makefile 2007-12-11 13:19:39.000000000 +0900
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@@ -23,8 +23,8 @@
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#*****************************************************************************/
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# Makefile for swat, phrap, cross_match, phrapview; also swprobs (currently inactivated)
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-CC= cc
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-CFLAGS= -O2
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+CC?= cc
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+#CFLAGS= -O2
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LFLAGS= -lm
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SWATOBJS= swat.o weibull.o
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@@ -55,11 +55,11 @@
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manyreads:
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touch swat.h;
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- make CFLAGS="-O2 -DMANYREADS" phrap cross_match;
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+ make CFLAGS="$(CFLAGS) -DMANYREADS" phrap cross_match;
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mv phrap phrap.manyreads;
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mv cross_match cross_match.manyreads;
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touch swat.h;
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- make CFLAGS="-O2 -DLONGREADS" phrap;
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+ make CFLAGS="$(CFLAGS) -DLONGREADS" phrap;
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mv phrap phrap.longreads;
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touch swat.h;
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make phrap cross_match;
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