###############################################################################
# Jalview - A Sequence Alignment Editor and Viewer (Version 2.8)
# Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
# 
# This file is part of Jalview.
# 
# Jalview is free software: you can redistribute it and/or
# modify it under the terms of the GNU General Public License 
# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
#  
# Jalview is distributed in the hope that it will be useful, but 
# WITHOUT ANY WARRANTY; without even the implied warranty 
# of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
# PURPOSE.  See the GNU General Public License for more details.
# 
# You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
###############################################################################
annotation.processing.enabled=true
annotation.processing.enabled.in.editor=false
annotation.processing.run.all.processors=true
annotation.processing.source.output=${build.generated.sources.dir}/ap-source-output
application.title=jalview
application.vendor=Barton Group
build.classes.dir=${build.dir}/classes
build.classes.excludes=**/*.java,**/*.form
# This directory is removed when the project is cleaned:
build.dir=build
build.generated.dir=${build.dir}/generated
build.generated.sources.dir=${build.dir}/generated-sources
# Only compile against the classpath explicitly listed here:
build.sysclasspath=ignore
build.test.classes.dir=${build.dir}/test/classes
build.test.results.dir=${build.dir}/test/results
buildfile=nbbuild.xml
# Uncomment to specify the preferred debugger connection transport:
#debug.transport=dt_socket
debug.classpath=\
    ${run.classpath}
debug.test.classpath=\
    ${run.test.classpath}
# This directory is removed when the project is cleaned:
dist.dir=dist
dist.jar=${dist.dir}/jalview.jar
dist.javadoc.dir=${dist.dir}/javadoc
endorsed.classpath=
excludes=
file.reference.activation.jar=lib/activation.jar
file.reference.apache-mime4j-0.6.jar=lib/apache-mime4j-0.6.jar
file.reference.axis.jar=lib/axis.jar
file.reference.castor-1.1-cycle-xml.jar=lib/castor-1.1-cycle-xml.jar
file.reference.commons-codec-1.3.jar=lib/commons-codec-1.3.jar
file.reference.commons-discovery.jar=lib/commons-discovery.jar
file.reference.commons-logging-1.1.1.jar=lib/commons-logging-1.1.1.jar
file.reference.commons-logging.jar=lib/commons-logging.jar
file.reference.httpclient-4.0.3.jar=lib/httpclient-4.0.3.jar
file.reference.httpcore-4.0.1.jar=lib/httpcore-4.0.1.jar
file.reference.httpmime-4.0.3.jar=lib/httpmime-4.0.3.jar
file.reference.jalview-src=src
file.reference.jaxrpc.jar=lib/jaxrpc.jar
file.reference.JGoogleAnalytics_0.3.jar=lib/JGoogleAnalytics_0.3.jar
file.reference.jhall.jar=lib/jhall.jar
file.reference.Jmol-14.6.4_2016.10.26.jar=lib/Jmol-14.6.4_2016.10.26.jar
file.reference.JmolApplet-14.6.4_2016.10.26.jar=appletlib/JmolApplet-14.6.4_2016.10.26.jar
file.reference.log4j-1.2.8.jar=lib/log4j-1.2.8.jar
file.reference.mail.jar=lib/mail.jar
file.reference.min-jaba-client.jar=lib/min-jaba-client-2.0.jar
file.reference.regex.jar=lib/regex.jar
file.reference.saaj.jar=lib/saaj.jar
file.reference.vamsas-client.jar=lib/vamsas-client.jar
file.reference.wsdl4j.jar=lib/wsdl4j.jar
file.reference.xercesImpl.jar=lib/xercesImpl.jar
file.reference.xml-apis.jar=lib/xml-apis.jar
file.reference.miglayout-4.0-swing.jar=lib/miglayout-4.0-swing.jar
file.reference.varna-3.9-dev.jar=lib/VARNAv3.9.jar
includes=**
jar.compress=false
javac.classpath=\
    ${libs.plugin.jar.classpath}:\
    ${file.reference.activation.jar}:\
    ${file.reference.apache-mime4j-0.6.jar}:\
    ${file.reference.axis.jar}:\
    ${file.reference.castor-1.1-cycle-xml.jar}:\
    ${file.reference.commons-codec-1.3.jar}:\
    ${file.reference.commons-discovery.jar}:\
    ${file.reference.commons-logging-1.1.1.jar}:\
    ${file.reference.commons-logging.jar}:\
    ${file.reference.regex.jar}:\
    ${file.reference.saaj.jar}:\
    ${file.reference.httpclient-4.0.3.jar}:\
    ${file.reference.httpcore-4.0.1.jar}:\
    ${file.reference.httpmime-4.0.3.jar}:\
    ${file.reference.jaxrpc.jar}:\
    ${file.reference.JGoogleAnalytics_0.3.jar}:\
    ${file.reference.jhall.jar}:\
    ${file.reference.Jmol-14.6.4_2016.10.26.jar}:\
    ${file.reference.miglayout-4.0-swing.jar}:\
    ${file.reference.log4j-1.2.8.jar}:\
    ${file.reference.mail.jar}:\
    ${file.reference.min-jaba-client.jar}:\
    ${file.reference.vamsas-client.jar}:\
    ${file.reference.xml-apis.jar}:\
    ${file.reference.xercesImpl.jar}:\
    ${file.reference.wsdl4j.jar}:\
    ${file.reference.JmolApplet-14.6.4_2016.10.26.jar} \
    ${file.reference.varna-3.9-dev.jar}
# Space-separated list of extra javac options
javac.compilerargs=
javac.deprecation=false
javac.processorpath=\
    ${javac.classpath}
javac.source=1.6
javac.target=1.6
javac.test.classpath=\
    ${javac.classpath}:\
    ${build.classes.dir}
javac.test.processorpath=\
    ${javac.test.classpath}
javadoc.additionalparam=
javadoc.author=false
javadoc.encoding=${source.encoding}
javadoc.noindex=false
javadoc.nonavbar=false
javadoc.notree=false
javadoc.private=false
javadoc.splitindex=true
javadoc.use=true
javadoc.version=false
javadoc.windowtitle=
main.class=jalview.bin.Jalview
manifest.file=manifest.mf
meta.inf.dir=${src.dir}/META-INF
mkdist.disabled=false
platform.active=default_platform
run.classpath=\
    ${javac.classpath}:\
    ${build.classes.dir}
# Space-separated list of JVM arguments used when running the project
# (you may also define separate properties like run-sys-prop.name=value instead of -Dname=value
# or test-sys-prop.name=value to set system properties for unit tests):
run.jvmargs=
run.test.classpath=\
    ${javac.test.classpath}:\
    ${build.test.classes.dir}
source.encoding=UTF-8
src.dir=${file.reference.jalview-src}