JAL-3224 Removed JREs (these now need to be in ~/buildtools/jre/openjdk-java_vm/...
authorBen Soares <bsoares@dundee.ac.uk>
Thu, 18 Apr 2019 11:37:00 +0000 (12:37 +0100)
committerBen Soares <bsoares@dundee.ac.uk>
Thu, 18 Apr 2019 11:37:00 +0000 (12:37 +0100)
commitfd9619a4034e5e2e4d2f1ed2ecb75e677c578308
tree3954f32e144a0deae212a552c520d59e5e1ad71c
parentf7ddd8a333c145dfdcf5f525a094f15ca3761bc2
JAL-3224 Removed JREs (these now need to be in ~/buildtools/jre/openjdk-java_vm/...). Moved install4j config to utils. Made install4j template file (gradle will edit this correctly). Fixed symbolic link in bundled MacOS JRE problem. Added getdown launcher with .tgz unbundling support [currently broken].
466 files changed:
.gitignore
build.gradle
getdown/lib/getdown-core-1.8.3-SNAPSHOT.jar
getdown/lib/getdown-launcher.jar
gradle.properties
j11lib/JGoogleAnalytics_0.3.jar [new file with mode: 0644]
j11lib/Jmol-14.6.4_2016.10.26.jar [new file with mode: 0644]
j11lib/VARNAv3-93.jar [new file with mode: 0644]
j11lib/VAqua5-patch.jar [new file with mode: 0644]
j11lib/apache-mime4j-0.6.jar [new file with mode: 0644]
j11lib/axis.jar [new file with mode: 0755]
j11lib/biojava-core-4.1.0.jar [new file with mode: 0644]
j11lib/biojava-ontology-4.1.0.jar [new file with mode: 0644]
j11lib/commons-codec-1.3.jar [new file with mode: 0644]
j11lib/commons-compress-1.18.jar [moved from utils/install4j/commons-compress-1.18.jar with 100% similarity]
j11lib/commons-discovery.jar [new file with mode: 0755]
j11lib/commons-logging-1.1.1.jar [new file with mode: 0644]
j11lib/getdown-launcher.jar [new file with mode: 0644]
j11lib/gmbal-api-only-MODULE.jar [new file with mode: 0644]
j11lib/groovy-all-2.4.12-indy.jar [new file with mode: 0644]
j11lib/htsjdk-2.12.0.jar [new file with mode: 0644]
j11lib/httpclient-4.0.3.jar [new file with mode: 0644]
j11lib/httpcore-4.0.1.jar [new file with mode: 0644]
j11lib/httpmime-4.0.3.jar [new file with mode: 0644]
j11lib/intervalstore-v1.0.jar [new file with mode: 0644]
j11lib/jabaws-min-client-2.2.0.jar [new file with mode: 0644]
j11lib/java-json.jar [new file with mode: 0755]
j11lib/jaxrpc.jar [new file with mode: 0755]
j11lib/jaxws-rt-java9.jar [new file with mode: 0644]
j11lib/jersey-client-1.19.jar [new file with mode: 0644]
j11lib/jersey-core-1.19.jar [new file with mode: 0644]
j11lib/jersey-json-1.19.jar [new file with mode: 0644]
j11lib/jetty-http-9.2.10.v20150310.jar [new file with mode: 0644]
j11lib/jetty-io-9.2.10.v20150310.jar [new file with mode: 0644]
j11lib/jetty-server-9.2.10.v20150310.jar [new file with mode: 0644]
j11lib/jetty-util-9.2.10.v20150310.jar [new file with mode: 0644]
j11lib/jfreesvg-2.1.jar [new file with mode: 0644]
j11lib/jhall.jar [new file with mode: 0755]
j11lib/json_simple-1.1.jar [new file with mode: 0644]
j11lib/jsoup-1.8.1.jar [new file with mode: 0644]
j11lib/jswingreader-0.3.jar [new file with mode: 0644]
j11lib/libquaqua-8.0.jnilib.jar [new file with mode: 0644]
j11lib/libquaqua64-8.0.jnilib.jar [new file with mode: 0644]
j11lib/log4j-to-slf4j-2.0-rc2.jar [new file with mode: 0644]
j11lib/mail-MODULE.jar [new file with mode: 0644]
j11lib/miglayout-4.0-swing.jar [new file with mode: 0644]
j11lib/quaqua-filechooser-only-8.0.jar [new file with mode: 0644]
j11lib/regex.jar [new file with mode: 0755]
j11lib/slf4j-api-1.7.7.jar [new file with mode: 0644]
j11lib/slf4j-log4j12-1.7.7.jar [new file with mode: 0644]
j11lib/vamsas-client.jar [new file with mode: 0644]
j11lib/xercesImpl.jar [new file with mode: 0644]
j11mod/FastInfoset.jar [new file with mode: 0644]
j11mod/commons-compress-1.18.jar [new file with mode: 0644]
j11mod/getdown-launcher.jar [new file with mode: 0644]
j11mod/istack-commons-runtime.jar [new file with mode: 0644]
j11mod/javax.activation-MODULE.jar [new file with mode: 0644]
j11mod/javax.annotation-api-MODULE.jar [new file with mode: 0644]
j11mod/javax.jws-api-1.1.jar [new file with mode: 0644]
j11mod/javax.servlet-api-MODULE.jar [new file with mode: 0644]
j11mod/javax.ws.rs-api-2.1.1.jar [new file with mode: 0644]
j11mod/javax.xml.soap-api.jar [new file with mode: 0644]
j11mod/jaxb-api-java9.jar [new file with mode: 0644]
j11mod/jaxb-runtime.jar [new file with mode: 0644]
j11mod/jaxws-api.jar [new file with mode: 0644]
j11mod/mimepull.jar [new file with mode: 0644]
j11mod/policy.jar [new file with mode: 0644]
j11mod/saaj-impl.jar [new file with mode: 0644]
j11mod/stax-ex.jar [new file with mode: 0644]
j11mod/stax2-api-MODULE.jar [new file with mode: 0644]
j11mod/streambuffer.jar [new file with mode: 0644]
j11mod/txw2.jar [new file with mode: 0644]
j11mod/wsdl4j-MODULE.jar [new file with mode: 0644]
j8lib/commons-compress-1.18.jar [new file with mode: 0644]
j8lib/getdown-launcher.jar [new file with mode: 0644]
utils/install4j/install4j_template.install4j [new file with mode: 0644]
utils/install4j/jalview_getdown.install4j
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/COPYRIGHT [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/LICENSE [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/README [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/THIRDPARTYLICENSEREADME-JAVAFX.txt [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/THIRDPARTYLICENSEREADME.txt [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/Welcome.html [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/bin/java [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/bin/jjs [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/bin/keytool [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/bin/orbd [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/bin/pack200 [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/bin/policytool [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/bin/rmid [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/bin/rmiregistry [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/bin/servertool [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/bin/tnameserv [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/bin/unpack200 [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/calendars.properties [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/charsets.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/classlist [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/cmm/CIEXYZ.pf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/cmm/GRAY.pf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/cmm/LINEAR_RGB.pf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/cmm/PYCC.pf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/cmm/sRGB.pf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/content-types.properties [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/currency.data [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/deploy.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/ext/cldrdata.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/ext/dnsns.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/ext/jaccess.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/ext/jfxrt.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/ext/localedata.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/ext/meta-index [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/ext/nashorn.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/ext/sunec.jar [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/ext/sunjce_provider.jar [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/ext/sunpkcs11.jar [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/ext/zipfs.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/flavormap.properties [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/fontconfig.bfc [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/fontconfig.properties.src [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/fonts/LucidaBrightDemiBold.ttf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/fonts/LucidaBrightDemiItalic.ttf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/fonts/LucidaBrightItalic.ttf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/fonts/LucidaBrightRegular.ttf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/fonts/LucidaSansDemiBold.ttf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/fonts/LucidaSansRegular.ttf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/fonts/LucidaTypewriterBold.ttf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/fonts/LucidaTypewriterRegular.ttf [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/fonts/fonts.dir [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/hijrah-config-umalqura.properties [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/images/cursors/cursors.properties [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/images/cursors/invalid32x32.gif [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/images/cursors/motif_CopyDrop32x32.gif [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/images/cursors/motif_CopyNoDrop32x32.gif [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/images/cursors/motif_LinkDrop32x32.gif [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/images/cursors/motif_LinkNoDrop32x32.gif [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/images/cursors/motif_MoveDrop32x32.gif [deleted file]
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utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/javafx.properties [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/jce.jar [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/jfr.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/jfr/default.jfc [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/jfr/profile.jfc [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/jfxswt.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/jli/libjli.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/jspawnhelper [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/jsse.jar.pack [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/jvm.cfg [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/jvm.hprof.txt [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libAppleScriptEngine.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libattach.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libawt.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libawt_lwawt.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libbci.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libdcpr.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libdecora_sse.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libdeploy.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libdt_socket.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libfontmanager.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libfxplugins.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libglass.dylib [deleted file]
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utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libgstreamer-lite.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libhprof.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libinstrument.dylib [deleted file]
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utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libjfr.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libjfxmedia.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libjfxmedia_avf.dylib [deleted file]
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utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libjpeg.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libjsdt.dylib [deleted file]
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utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libmanagement.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libmlib_image.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libnet.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libnio.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libnpt.dylib [deleted file]
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utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libosxkrb5.dylib [deleted file]
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utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libsunec.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libt2k.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libunpack.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libverify.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/libzip.dylib [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/logging.properties [deleted file]
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utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/management/jmxremote.access [deleted file]
utils/install4j/jres/macosx-amd64-1.8.0_202/java_vm/Contents/Home/jre/lib/management/jmxremote.password.template [deleted file]
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