hmmer: Newer version required for py-anvio

[Jason Bacon <bacon%NetBSD.org@localhost>]

Module Name:	pkgsrc-wip
Committed By:	Jason Bacon <bacon%NetBSD.org@localhost>
Pushed By:	outpaddling
Date:		Tue Nov 6 09:12:09 2018 -0600
Changeset:	6a5136f6f9307e38a886bc7d6f260b56256e4feb

Modified Files:
	Makefile
Added Files:
	hmmer/DESCR
	hmmer/Makefile
	hmmer/PLIST
	hmmer/distinfo

Log Message:
hmmer: Newer version required for py-anvio

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=6a5136f6f9307e38a886bc7d6f260b56256e4feb

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

diffstat:
 Makefile       |  1 +
 hmmer/DESCR    |  7 +++++++
 hmmer/Makefile | 54 ++++++++++++++++++++++++++++++++++++++++++++++++++++++
 hmmer/PLIST    | 38 ++++++++++++++++++++++++++++++++++++++
 hmmer/distinfo |  6 ++++++
 5 files changed, 106 insertions(+)

diffs:
diff --git a/Makefile b/Makefile
index ac5e62c0e3..1e874feeec 100644
--- a/Makefile
+++ b/Makefile
@@ -1287,6 +1287,7 @@ SUBDIR+=	higan
 SUBDIR+=	higgsbounds
 SUBDIR+=	hijra
 SUBDIR+=	hlint
+SUBDIR+=	hmmer
 SUBDIR+=	honggfuzz-git
 SUBDIR+=	hoogle
 SUBDIR+=	howdoi
diff --git a/hmmer/DESCR b/hmmer/DESCR
new file mode 100644
index 0000000000..fdc94b9677
--- /dev/null
+++ b/hmmer/DESCR
@@ -0,0 +1,7 @@
+HMMER is an implementation of profile hidden Markov model methods for
+sensitive searches of biological sequence databases using multiple sequence
+alignments as queries.
+Given a multiple sequence alignment as input, HMMER builds a statistical
+model called a "hidden Markov model" which can then be used as a query into
+a sequence database to find (and/or align) additional homologues of the
+sequence family.
diff --git a/hmmer/Makefile b/hmmer/Makefile
new file mode 100644
index 0000000000..81a3d2ccf0
--- /dev/null
+++ b/hmmer/Makefile
@@ -0,0 +1,54 @@
+# $NetBSD$
+#
+###########################################################
+#                  Generated by fbsd2pkg                  #
+#              Tue Nov  6 08:54:26 CST 2018               #
+###########################################################
+
+###########################################################
+# Unconverted and partially converted FreeBSD port syntax:
+
+#TEST_TARGET=	check
+#SHEBANG_GLOB=	*.pl
+#OPTIONS_DEFINE=	DOCS EXAMPLES TEST
+#DOCFILES=	Userguide.pdf
+#EXAMPLES=	7LESS_DROME HBB_HUMAN MADE1.hmm MADE1.sto \
+#		Pkinase.hmm Pkinase.sto dna_target.fa fn3.hmm fn3.sto \
+#		globins4.hmm globins4.sto globins45.fa
+#TEST_VARS=	use_perl5=build
+#post-build-TEST-on:	do-test
+#post-install:
+#	@${STRIP} ${DESTDIR}${PREFIX}/bin/*
+#post-install-DOCS-on:
+#	@${MKDIR} ${DESTDIR}${DOCSDIR}
+#	${INSTALL_DATA} ${DOCFILES:S,^,${WRKSRC}/,} ${DESTDIR}${DOCSDIR}
+#post-install-EXAMPLES-on:
+#	@${MKDIR} ${DESTDIR}${EXAMPLESDIR}
+#	${INSTALL_DATA} ${EXAMPLES:S,^,${WRKSRC}/tutorial/,} ${DESTDIR}${EXAMPLESDIR}
+
+DISTNAME=	hmmer-${PV}
+CATEGORIES=	biology
+MASTER_SITES=	http://eddylab.org/software/hmmer/
+
+MAINTAINER=	bacon%NetBSD.org@localhost
+HOMEPAGE=	http://hmmer.org/
+COMMENT=	Profile hidden Markov models for biological sequence analysis
+LICENSE=	modified-bsd
+
+# Requires SSE2 or AltiVec instructions
+ONLY_FOR_PLATFORM=	 *-*-x86_64 *-*-i386 *-*-ia64 *-*-powerpc *-*-powerpc64
+
+USE_LANGUAGES=	c c++
+USE_TOOLS+=	gmake perl:test
+GNU_CONFIGURE=	yes
+REPLACE_PERL=	easel/devkit/*
+
+MAKE_FLAGS+=	V=1
+
+PV=		3.2.1
+#SITE_PERL=	${PREFIX}/share
+#DATADIR=	${PREFIX}/share/hmmer
+#DOCSDIR=	${PREFIX}/share/doc/hmmer
+#EXAMPLESDIR=	${PREFIX}/share/examples/hmmer
+
+.include "../../mk/bsd.pkg.mk"
diff --git a/hmmer/PLIST b/hmmer/PLIST
new file mode 100644
index 0000000000..cbee4cedf9
--- /dev/null
+++ b/hmmer/PLIST
@@ -0,0 +1,38 @@
+@comment $NetBSD$
+bin/alimask
+bin/hmmalign
+bin/hmmbuild
+bin/hmmconvert
+bin/hmmemit
+bin/hmmfetch
+bin/hmmlogo
+bin/hmmpgmd
+bin/hmmpress
+bin/hmmscan
+bin/hmmsearch
+bin/hmmsim
+bin/hmmstat
+bin/jackhmmer
+bin/makehmmerdb
+bin/nhmmer
+bin/nhmmscan
+bin/phmmer
+man/man1/alimask.1
+man/man1/hmmalign.1
+man/man1/hmmbuild.1
+man/man1/hmmconvert.1
+man/man1/hmmemit.1
+man/man1/hmmer.1
+man/man1/hmmfetch.1
+man/man1/hmmlogo.1
+man/man1/hmmpgmd.1
+man/man1/hmmpress.1
+man/man1/hmmscan.1
+man/man1/hmmsearch.1
+man/man1/hmmsim.1
+man/man1/hmmstat.1
+man/man1/jackhmmer.1
+man/man1/makehmmerdb.1
+man/man1/nhmmer.1
+man/man1/nhmmscan.1
+man/man1/phmmer.1
diff --git a/hmmer/distinfo b/hmmer/distinfo
new file mode 100644
index 0000000000..8bf5e87db3
--- /dev/null
+++ b/hmmer/distinfo
@@ -0,0 +1,6 @@
+$NetBSD$
+
+SHA1 (hmmer-3.2.1.tar.gz) = d50bd97ef696e2adf52fe8721f54cc99fb21344f
+RMD160 (hmmer-3.2.1.tar.gz) = 68d395678ee9881c956359c84514d715b0f0e30e
+SHA512 (hmmer-3.2.1.tar.gz) = e3303710c6748ffdf952c89b6202a2c322b984eca2141fe072f2f280a70e559c61d5224b3570bb8fb5bc34c49e63c9bbc56d0495898c446dd0f8df33b594b4c0
+Size (hmmer-3.2.1.tar.gz) = 7670274 bytes