svn commit: r492893 - in head/science: . opsin opsin/files
Yuri Victorovich
yuri at FreeBSD.org
Thu Feb 14 00:54:58 UTC 2019
Author: yuri
Date: Thu Feb 14 00:54:56 2019
New Revision: 492893
URL: https://svnweb.freebsd.org/changeset/ports/492893
Log:
New port: science/opsin: Open Parser for Systematic IUPAC Nomenclature of chemical names
Added:
head/science/opsin/
head/science/opsin/Makefile (contents, props changed)
head/science/opsin/distinfo (contents, props changed)
head/science/opsin/files/
head/science/opsin/files/opsin.in (contents, props changed)
head/science/opsin/pkg-descr (contents, props changed)
Modified:
head/science/Makefile
Modified: head/science/Makefile
==============================================================================
--- head/science/Makefile Thu Feb 14 00:45:52 2019 (r492892)
+++ head/science/Makefile Thu Feb 14 00:54:56 2019 (r492893)
@@ -173,6 +173,7 @@
SUBDIR += openmx
SUBDIR += opensim-core
SUBDIR += openstructure
+ SUBDIR += opsin
SUBDIR += p5-Algorithm-SVMLight
SUBDIR += p5-Chemistry-3DBuilder
SUBDIR += p5-Chemistry-Bond-Find
Added: head/science/opsin/Makefile
==============================================================================
--- /dev/null 00:00:00 1970 (empty, because file is newly added)
+++ head/science/opsin/Makefile Thu Feb 14 00:54:56 2019 (r492893)
@@ -0,0 +1,62 @@
+# $FreeBSD$
+
+PORTNAME= opsin
+DISTVERSION= 3.0.20190208
+CATEGORIES= science java
+MASTER_SITES= https://bitbucket.org/${BB_ACCOUNT}/${PORTNAME}/get/${BB_COMMIT}${EXTRACT_SUFX}?dummy=/:src
+DISTFILES= ${PORTNAME}-${DISTVERSION}${EXTRACT_SUFX}:src
+
+MAINTAINER= yuri at FreeBSD.org
+COMMENT= Open Parser for Systematic IUPAC Nomenclature of chemical names
+
+LICENSE= MIT
+LICENSE_FILE= ${WRKSRC}/LICENSE.txt
+
+BUILD_DEPENDS= mvn:devel/maven
+
+USE_JAVA= yes
+
+NO_ARCH= yes
+
+BB_ACCOUNT= dan2097
+BB_COMMIT= 6688e0cedfcc
+
+WRKSRC= ${WRKDIR}/${BB_ACCOUNT}-${PORTNAME}-${BB_COMMIT}
+SUB_FILES= ${PORTNAME}
+SUB_LIST= JAVA=${JAVA} PORTNAME=${PORTNAME} PORTVERSION=${PORTVERSION}
+
+PLIST_FILES= bin/${PORTNAME} \
+ ${JAVAJARDIR}/${PORTNAME}-${PORTVERSION}-jar-with-dependencies.jar
+
+# to rebuild the deps archive:
+# 1. set DEV_UPDATE_MODE=yes
+# 2. make makesum build
+# 3. upload the *-deps archive
+# 4. set DEV_UPDATE_MODE=no
+# 5. make clean makesum
+
+DEV_UPDATE_MODE= no
+
+.if (${DEV_UPDATE_MODE} == "yes")
+post-build:
+ @cd ${WRKDIR} && ${TAR} czf ${DISTDIR}/${PORTNAME}-${DISTVERSION}-deps${EXTRACT_SUFX} .m2
+ @${ECHO} "(!!!) Please upload the maven deps archive: ${DISTDIR}/${PORTNAME}-${DISTVERSION}-deps${EXTRACT_SUFX}"
+.else
+MASTER_SITES+= LOCAL/yuri/:maven
+DISTFILES+= ${PORTNAME}-${DISTVERSION}-deps${EXTRACT_SUFX}:maven
+MVN_ARGS= --offline
+.endif
+
+do-build:
+ @cd ${WRKSRC} && ${SETENV} ${MAKE_ENV} \
+ ${LOCALBASE}/bin/mvn ${MVN_ARGS} \
+ -fae install \
+ -Dmaven.test.skip=true \
+ -Duser.home=${WRKDIR} \
+ package assembly:assembly
+
+do-install:
+ ${INSTALL_SCRIPT} ${WRKDIR}/${PORTNAME} ${STAGEDIR}${PREFIX}/bin
+ ${INSTALL_DATA} ${WRKSRC}/target/${PORTNAME}-*-jar-with-dependencies.jar ${STAGEDIR}${JAVAJARDIR}/${PORTNAME}-${PORTVERSION}-jar-with-dependencies.jar
+
+.include <bsd.port.mk>
Added: head/science/opsin/distinfo
==============================================================================
--- /dev/null 00:00:00 1970 (empty, because file is newly added)
+++ head/science/opsin/distinfo Thu Feb 14 00:54:56 2019 (r492893)
@@ -0,0 +1,5 @@
+TIMESTAMP = 1550104217
+SHA256 (opsin-3.0.20190208.tar.gz) = d37222168a0ffb412109095212152f31b0b909abdaa14158561424651426df8f
+SIZE (opsin-3.0.20190208.tar.gz) = 1795278
+SHA256 (opsin-3.0.20190208-deps.tar.gz) = b42bfc011571d7e12fbc4e051653d19edaef6b7d04aaa146c817e1309dc4cba2
+SIZE (opsin-3.0.20190208-deps.tar.gz) = 20394666
Added: head/science/opsin/files/opsin.in
==============================================================================
--- /dev/null 00:00:00 1970 (empty, because file is newly added)
+++ head/science/opsin/files/opsin.in Thu Feb 14 00:54:56 2019 (r492893)
@@ -0,0 +1,5 @@
+#!/bin/sh
+
+export LC_ALL=en_US.UTF-8
+
+%%JAVA%% -jar %%JAVAJARDIR%%/%%PORTNAME%%-%%PORTVERSION%%-jar-with-dependencies.jar "$@"
Added: head/science/opsin/pkg-descr
==============================================================================
--- /dev/null 00:00:00 1970 (empty, because file is newly added)
+++ head/science/opsin/pkg-descr Thu Feb 14 00:54:56 2019 (r492893)
@@ -0,0 +1,6 @@
+OPSIN is a Java library for IUPAC name-to-structure conversion offering high
+recall and precision on organic chemical nomenclature.
+Supported outputs are SMILES, CML (Chemical Markup Language) and InChI (IUPAC
+International Chemical Identifier).
+
+WWW: https://bitbucket.org/dan2097/opsin/src/default/
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