trimmomatic: Remove following commit to biology

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

Module Name:	pkgsrc-wip
Committed By:	Jason Bacon <bacon%NetBSD.org@localhost>
Pushed By:	outpaddling
Date:		Sat May 4 11:20:37 2019 -0500
Changeset:	6c33f11240a037ac89c0079c322900c1090d4041

Modified Files:
	Makefile
	ddocent/Makefile
Removed Files:
	trimmomatic/DESCR
	trimmomatic/Makefile
	trimmomatic/PLIST
	trimmomatic/distinfo

Log Message:
trimmomatic: Remove following commit to biology

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=6c33f11240a037ac89c0079c322900c1090d4041

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

diffstat:
 Makefile             |  1 -
 ddocent/Makefile     |  2 +-
 trimmomatic/DESCR    |  2 --
 trimmomatic/Makefile | 34 ----------------------------------
 trimmomatic/PLIST    |  8 --------
 trimmomatic/distinfo |  6 ------
 6 files changed, 1 insertion(+), 52 deletions(-)

diffs:
diff --git a/Makefile b/Makefile
index 7bdbfb006d..8d141e95f0 100644
--- a/Makefile
+++ b/Makefile
@@ -4716,7 +4716,6 @@ SUBDIR+=	trelby
 SUBDIR+=	triangle
 SUBDIR+=	triforce-afl
 SUBDIR+=	trimadap
-SUBDIR+=	trimmomatic
 SUBDIR+=	trinity
 SUBDIR+=	tripwire2
 SUBDIR+=	truecrypt
diff --git a/ddocent/Makefile b/ddocent/Makefile
index 10bfcb6f32..ae37e968fc 100644
--- a/ddocent/Makefile
+++ b/ddocent/Makefile
@@ -29,7 +29,7 @@ DEPENDS=	mawk>=0:../../lang/mawk \
 		cdhit>=0:../../biology/cdhit \
 		samtools>=1.3:../../wip/samtools \
 		vcftools>=0.1.15:../../wip/vcftools \
-		Trimmomatic>=0:../../wip/trimmomatic \
+		Trimmomatic>=0:../../biology/trimmomatic \
 		stacks>=0:../../biology/stacks \
 		rainbow>=0:../../wip/rainbow \
 		trimadap>=0:../../wip/trimadap \
diff --git a/trimmomatic/DESCR b/trimmomatic/DESCR
deleted file mode 100644
index acf81906fa..0000000000
--- a/trimmomatic/DESCR
+++ /dev/null
@@ -1,2 +0,0 @@
-Trimmomatic performs a variety of useful trimming tasks for illumina
-NGS paired-end and single ended data.
diff --git a/trimmomatic/Makefile b/trimmomatic/Makefile
deleted file mode 100644
index 39cc126b21..0000000000
--- a/trimmomatic/Makefile
+++ /dev/null
@@ -1,34 +0,0 @@
-# $NetBSD$
-#
-###########################################################
-#                  Generated by fbsd2pkg                  #
-#              Fri Sep 14 15:34:17 CDT 2018               #
-###########################################################
-
-DISTNAME=	Trimmomatic-${PV}
-CATEGORIES=	biology
-MASTER_SITES=	http://www.usadellab.org/cms/uploads/supplementary/Trimmomatic/
-EXTRACT_SUFX=	.zip
-
-MAINTAINER=	bacon%NetBSD.org@localhost
-HOMEPAGE=	http://www.usadellab.org/cms/?page=trimmomatic
-COMMENT=	Flexible read trimming tool for Illumina NGS data
-LICENSE=	gnu-gpl-v3
-
-USE_LANGUAGES=	c c++
-USE_TOOLS+=	pax
-USE_JAVA=	run
-NO_BUILD=	yes
-
-PV=		0.38
-DATADIR=	${PREFIX}/share/trimmomatic
-JAVAJARDIR=	${PREFIX}/share/java/classes
-
-INSTALLATION_DIRS=	share/trimmomatic share/java/classes
-
-do-install:
-	${INSTALL_DATA} ${WRKSRC}/trimmomatic-${PV}.jar \
-		${DESTDIR}${JAVAJARDIR}/trimmomatic.jar
-	cd ${WRKSRC} && pax -rw adapters ${DESTDIR}${DATADIR}
-
-.include "../../mk/bsd.pkg.mk"
diff --git a/trimmomatic/PLIST b/trimmomatic/PLIST
deleted file mode 100644
index 68225577e0..0000000000
--- a/trimmomatic/PLIST
+++ /dev/null
@@ -1,8 +0,0 @@
-@comment $NetBSD$
-share/java/classes/trimmomatic.jar
-share/trimmomatic/adapters/NexteraPE-PE.fa
-share/trimmomatic/adapters/TruSeq2-PE.fa
-share/trimmomatic/adapters/TruSeq2-SE.fa
-share/trimmomatic/adapters/TruSeq3-PE-2.fa
-share/trimmomatic/adapters/TruSeq3-PE.fa
-share/trimmomatic/adapters/TruSeq3-SE.fa
diff --git a/trimmomatic/distinfo b/trimmomatic/distinfo
deleted file mode 100644
index e7f63d90b0..0000000000
--- a/trimmomatic/distinfo
+++ /dev/null
@@ -1,6 +0,0 @@
-$NetBSD$
-
-SHA1 (Trimmomatic-0.38.zip) = e255b1f6c53a97e1c09c0ca6327b1798d3a36e78
-RMD160 (Trimmomatic-0.38.zip) = 8fbb1b03928c21dd637973ec10e28a107e800e54
-SHA512 (Trimmomatic-0.38.zip) = 899807a091e491a4f99c1522f9db52d7563da891393a9f20aa19c504be55956d8309564e8cca46bc3e956a4d9602d5c9475f3a1e622a501b6920aa3f3f72743b
-Size (Trimmomatic-0.38.zip) = 132647 bytes