CD-HIT is a very widely used program for clustering and comparing protein or
nucleotide sequences. WWW: http://weizhong-lab.ucsd.edu/cd-hit/ PR: 203183 Submitted by: jwbacon@tds.net
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Notes:
svn2git
2021-03-31 03:12:20 +00:00
svn path=/head/; revision=397318
@ -11,6 +11,7 @@
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SUBDIR += biococoa
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SUBDIR += biojava
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SUBDIR += blat
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SUBDIR += cd-hit
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SUBDIR += chemeq
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SUBDIR += clustalw
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SUBDIR += consed
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41
biology/cd-hit/Makefile
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41
biology/cd-hit/Makefile
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# Created by: Jason Bacon <jwbacon@tds.net>
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# $FreeBSD$
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PORTNAME= cd-hit
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PORTVERSION= 4.6.4
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DISTVERSIONPREFIX= V
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CATEGORIES= biology
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MAINTAINER= jwbacon@tds.net
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COMMENT= Clustering and comparing protein or nucleotide sequences
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LICENSE= GPLv2
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USE_GITHUB= yes
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GH_ACCOUNT= weizhongli
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GH_PROJECT= cdhit
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USES= gmake shebangfix
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WRKSRC= ${WRKDIR}/cdhit-${PORTVERSION}
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# Only for OpenMP
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USE_GCC= yes
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SHEBANG_FILES= ${WRKSRC}/*.pl
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#MAKEFILE= makefile
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MAKE_FLAGS= openmp=yes
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post-patch:
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@${REINPLACE_CMD} \
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-e 's|g++|${CXX}|g' \
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-e 's|\$$(PREFIX)|$${DESTDIR}$${PREFIX}/bin|g' \
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${WRKSRC}/${MAKEFILE}
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@${REINPLACE_CMD} \
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-e 's|/bin/bash|${LOCALBASE}/bin/bash|g' \
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${WRKSRC}/*.pl
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post-stage:
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@cd ${STAGEDIR}${PREFIX}/bin && \
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${STRIP_CMD} cd-hit cd-hit-2d cd-hit-454 \
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cd-hit-div cd-hit-est cd-hit-est-2d
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.include <bsd.port.mk>
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2
biology/cd-hit/distinfo
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2
biology/cd-hit/distinfo
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SHA256 (weizhongli-cdhit-V4.6.4_GH0.tar.gz) = b170108147ec91d8b5f9d10b9e8d5fd971e7aef3af6ec1e5542cbaf10d54b2fc
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SIZE (weizhongli-cdhit-V4.6.4_GH0.tar.gz) = 1148426
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4
biology/cd-hit/pkg-descr
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4
biology/cd-hit/pkg-descr
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CD-HIT is a very widely used program for clustering and comparing protein or
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nucleotide sequences.
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WWW: http://weizhong-lab.ucsd.edu/cd-hit/
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biology/cd-hit/pkg-plist
Normal file
33
biology/cd-hit/pkg-plist
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bin/cd-hit
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bin/cd-hit-2d
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bin/cd-hit-2d-para.pl
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bin/cd-hit-454
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bin/cd-hit-div
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bin/cd-hit-div.pl
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bin/cd-hit-est
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bin/cd-hit-est-2d
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bin/cd-hit-para.pl
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bin/clstr2tree.pl
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bin/clstr2txt.pl
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bin/clstr2xml.pl
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bin/clstr_cut.pl
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bin/clstr_merge.pl
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bin/clstr_merge_noorder.pl
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bin/clstr_quality_eval.pl
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bin/clstr_quality_eval_by_link.pl
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bin/clstr_reduce.pl
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bin/clstr_renumber.pl
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bin/clstr_rep.pl
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bin/clstr_reps_faa_rev.pl
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bin/clstr_rev.pl
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bin/clstr_select.pl
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bin/clstr_select_rep.pl
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bin/clstr_size_histogram.pl
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bin/clstr_size_stat.pl
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bin/clstr_sort_by.pl
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bin/clstr_sort_prot_by.pl
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bin/clstr_sql_tbl.pl
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bin/clstr_sql_tbl_sort.pl
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bin/make_multi_seq.pl
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bin/plot_2d.pl
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bin/plot_len1.pl
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