diff options
| -rw-r--r-- | .SRCINFO | 172 | ||||
| -rw-r--r-- | .gitignore | 246 | ||||
| -rw-r--r-- | PKGBUILD | 215 | ||||
| -rw-r--r--[-rwxr-xr-x] | jalview | 5 | ||||
| -rw-r--r-- | jalview.desktop | 2 | ||||
| -rw-r--r--[-rwxr-xr-x] | update_sources.py | 4 |
6 files changed, 49 insertions, 595 deletions
@@ -1,172 +1,18 @@ -# Generated by mksrcinfo v8 -# Fri Jul 6 15:06:17 UTC 2018 pkgbase = jalview pkgdesc = Bioinformatics Multiple Alignment Editor - pkgver = 2.10.4 - pkgrel = 1 - url = http://www.jalview.org/ + pkgver = 2.11.2.0 + pkgrel = 2 + url = https://www.jalview.org/ arch = any license = GPL3 + makedepends = tar depends = java-runtime - noextract = jalview.jar - noextract = JGoogleAnalytics_0.3.jar - noextract = Jmol-14.6.4_2016.10.26.jar - noextract = VARNAv3-93.jar - noextract = VAqua4.jar - noextract = activation.jar - noextract = apache-mime4j-0.6.jar - noextract = axis.jar - noextract = biojava-core-4.1.0.jar - noextract = biojava-ontology-4.1.0.jar - noextract = castor-1.1-cycle-xml.jar - noextract = commons-codec-1.3.jar - noextract = commons-discovery.jar - noextract = commons-logging-1.1.1.jar - noextract = groovy-all-2.4.12-indy.jar - noextract = htsjdk-1.133.jar - noextract = httpclient-4.0.3.jar - noextract = httpcore-4.0.1.jar - noextract = httpmime-4.0.3.jar - noextract = jabaws-min-client-2.2.0.jar - noextract = jalview_jnlp_vm.jar - noextract = java-json.jar - noextract = jaxrpc.jar - noextract = jdas-1.0.4.jar - noextract = jersey-client-1.19.jar - noextract = jersey-core-1.19.jar - noextract = jersey-json-1.19.jar - noextract = jetty-http-9.2.10.v20150310.jar - noextract = jetty-io-9.2.10.v20150310.jar - noextract = jetty-server-9.2.10.v20150310.jar - noextract = jetty-util-9.2.10.v20150310.jar - noextract = jfreesvg-2.1.jar - noextract = jhall.jar - noextract = json_simple-1.1.jar - noextract = jsoup-1.8.1.jar - noextract = jsr311-api-1.1.1.jar - noextract = jswingreader-0.3.jar - noextract = log4j-to-slf4j-2.0-rc2.jar - noextract = mail.jar - noextract = miglayout-4.0-swing.jar - noextract = regex.jar - noextract = saaj.jar - noextract = servlet-api-3.1.jar - noextract = slf4j-api-1.7.7.jar - noextract = slf4j-log4j12-1.7.7.jar - noextract = spring-core-3.0.5.RELEASE.jar - noextract = spring-web-3.0.5.RELEASE.jar - noextract = vamsas-client.jar - noextract = wsdl4j.jar - noextract = xercesImpl.jar - noextract = xml-apis.jar - source = http://www.jalview.org/webstart/jalview.jar - source = http://www.jalview.org/webstart/JGoogleAnalytics_0.3.jar - source = http://www.jalview.org/webstart/Jmol-14.6.4_2016.10.26.jar - source = http://www.jalview.org/webstart/VARNAv3-93.jar - source = http://www.jalview.org/webstart/VAqua4.jar - source = http://www.jalview.org/webstart/activation.jar - source = http://www.jalview.org/webstart/apache-mime4j-0.6.jar - source = http://www.jalview.org/webstart/axis.jar - source = http://www.jalview.org/webstart/biojava-core-4.1.0.jar - source = http://www.jalview.org/webstart/biojava-ontology-4.1.0.jar - source = http://www.jalview.org/webstart/castor-1.1-cycle-xml.jar - source = http://www.jalview.org/webstart/commons-codec-1.3.jar - source = http://www.jalview.org/webstart/commons-discovery.jar - source = http://www.jalview.org/webstart/commons-logging-1.1.1.jar - source = http://www.jalview.org/webstart/groovy-all-2.4.12-indy.jar - source = http://www.jalview.org/webstart/htsjdk-1.133.jar - source = http://www.jalview.org/webstart/httpclient-4.0.3.jar - source = http://www.jalview.org/webstart/httpcore-4.0.1.jar - source = http://www.jalview.org/webstart/httpmime-4.0.3.jar - source = http://www.jalview.org/webstart/jabaws-min-client-2.2.0.jar - source = http://www.jalview.org/webstart/jalview_jnlp_vm.jar - source = http://www.jalview.org/webstart/java-json.jar - source = http://www.jalview.org/webstart/jaxrpc.jar - source = http://www.jalview.org/webstart/jdas-1.0.4.jar - source = http://www.jalview.org/webstart/jersey-client-1.19.jar - source = http://www.jalview.org/webstart/jersey-core-1.19.jar - source = http://www.jalview.org/webstart/jersey-json-1.19.jar - source = http://www.jalview.org/webstart/jetty-http-9.2.10.v20150310.jar - source = http://www.jalview.org/webstart/jetty-io-9.2.10.v20150310.jar - source = http://www.jalview.org/webstart/jetty-server-9.2.10.v20150310.jar - source = http://www.jalview.org/webstart/jetty-util-9.2.10.v20150310.jar - source = http://www.jalview.org/webstart/jfreesvg-2.1.jar - source = http://www.jalview.org/webstart/jhall.jar - source = http://www.jalview.org/webstart/json_simple-1.1.jar - source = http://www.jalview.org/webstart/jsoup-1.8.1.jar - source = http://www.jalview.org/webstart/jsr311-api-1.1.1.jar - source = http://www.jalview.org/webstart/jswingreader-0.3.jar - source = http://www.jalview.org/webstart/log4j-to-slf4j-2.0-rc2.jar - source = http://www.jalview.org/webstart/mail.jar - source = http://www.jalview.org/webstart/miglayout-4.0-swing.jar - source = http://www.jalview.org/webstart/regex.jar - source = http://www.jalview.org/webstart/saaj.jar - source = http://www.jalview.org/webstart/servlet-api-3.1.jar - source = http://www.jalview.org/webstart/slf4j-api-1.7.7.jar - source = http://www.jalview.org/webstart/slf4j-log4j12-1.7.7.jar - source = http://www.jalview.org/webstart/spring-core-3.0.5.RELEASE.jar - source = http://www.jalview.org/webstart/spring-web-3.0.5.RELEASE.jar - source = http://www.jalview.org/webstart/vamsas-client.jar - source = http://www.jalview.org/webstart/wsdl4j.jar - source = http://www.jalview.org/webstart/xercesImpl.jar - source = http://www.jalview.org/webstart/xml-apis.jar - source = logo.gif + noextract = jalview-2_11_2_0-unix-java_8.tar.gz + source = http://www.jalview.org/getdown/release/install4j/1.8/jalview-2_11_2_0-unix-java_8.tar.gz source = jalview source = jalview.desktop - sha256sums = f0824ec5e2f0937ea40cb5e8714abd90ce02a1f57373565165d5a5b927cae2bc - sha256sums = 4287fa68882bc43cdbb537cf7fee9d068b954e2cc3bc7baa81c99aa78a02603d - sha256sums = e87ac185ecde5707e3b4e4446c682d486204c266e8f7824f8d4b854b6007419e - sha256sums = f654be5d31e69b552cf6c672f18548f72600f10d5a5ed0dfb77877b2cb21ab1d - sha256sums = 090fd11c5b6f9495d47d59c18ade76243c21d69c091721504832d475417a121f - sha256sums = 93e7791e2b22b5fe61507ac946b112de8869bf8ea99e91d93a7bd1e38f0f457b - sha256sums = 6332dbdb6fe313727a845fdb16d19caef7f96656013df7694afb66aab91860a0 - sha256sums = 8fd0ffa3b96bce974a6fd25ea28d7a166cbff89e19b61faba12532a34cc6fc10 - sha256sums = c5a227957e52bae4940a39c5a0db7bef5d85ca71c8386b49c3f4c92a4db4b5a6 - 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sha256sums = a0bcbe5fde176a41940b6b5f28bbedccc301ff611a449699abcdfb003b70bdf4 - sha256sums = ce82ed5627f286c214b6028da7a6cb2535d8cbcb000460588634fb23cb976e30 - sha256sums = 3f66d0db7630df5be6d9f43bdbe1ec49c40b6ac4b640410f2a464a3ed9bb42ba - sha256sums = e1dd5af814e14b3f8605dec7e2f77d5bb5f50056c593b77ea356d5dd4ff7a9c9 - sha256sums = d73d734ec496e2dda9cf77282b2151e92a2ac37715652bfbb8d64b3a4e006922 - sha256sums = ad17ba5fdf088c38885e236ee316a05db7ce459db54dfc5301fcf57deba07c1b - sha256sums = f39997ad7c9e9217a243a4b53caf8b118e73624b7625c520cb81000f14357da7 - sha256sums = b05464ae8a363fc5ffba6c54a165f8a53595ed4007bf2afc44a7b92ae84d46c3 - sha256sums = 15c0e31ac8905eade51510115cdef744a2d2b95cb00cd39930a37a329269901a - sha256sums = 85f5be49298e31db0ac3922cb23d712bba44d2727176c59379de60ab261428a8 - sha256sums = c51fe38d6694e0276bddcc75302af4265e1768290c9368e00700937522933598 - sha256sums = 056707ec5f6a40680c4014c553cb5231c4ae4d5a6580ee23e5172ac216519c86 - sha256sums = 3a1819495ef924e09302ed6c151e5af45ecc17419e5e1abc4bf5ac998c6ad454 - sha256sums = 333a61e20548efe9f078084f9900e5a11e9f269da40fd2fd787929aaa1bcd0a5 - sha256sums = 435fb15c69d6591458b78e90408fbe7a24b3fc26e00463637475e8f3f9ea13d9 - sha256sums = 24389a232199e266a7f1313cadfdfca7eb5c29e7beb73fe36404e32bcc37c679 - sha256sums = 402cb251e28eeae688c283d7519e406c5209a8b437790abfa566a87e0d39d5f2 - sha256sums = 0c3018a404414aed8f9dc8b98299ce25b9d9b18058c766095644dc0e0429cd4d - sha256sums = e9c3eee5eda199e7604a070022d23a08d75ec971adc7af46022cad2d7769ecf4 - sha256sums = d4ac8fa10522e7448854e6f9edc864b7ce8f293a7bb74d9f6967a1c972cb2792 - sha256sums = 5b3dc9cbfbff4a766b88a367a54f1aa14e6e884d92c1ef5580727517e3821233 - sha256sums = 65b2c0f1b90692834bc598eb01a1f620fe9e894639f52039ab52d63e1230923d - sha256sums = 8ed967ff793333cc57e680c69fe3d51996c489e583cd06849c23b862c8ce563d - sha256sums = a8bb52277ee8cecee7cf01e1243b9a9ecef34b483e422f012542f6a53cecc422 - sha256sums = 9dde6a5de2d5480e2a1c5a7797979c8508c9d43967ebc5732a702da954921a6b - sha256sums = 2216d27e24e0fc90ab6878491b2fd99bb06390c608f8d4e3e9cbb489bdeb50c6 - sha256sums = d35b7e51699f9aa0df15e190d6b582504340efcacb951b57fe69e0c7bffc0440 - sha256sums = 457cea1c8a488ea58ef6ff41fa2591e0fc55d066878ee2017b5386d69d1f80cd - sha256sums = 027dba0cc3b13e2ca9e2fd93c8bcc5fc90d06ddb5d50cc369294d55d9d4abe44 - sha256sums = 362790ef6d3e3c537a6d31663a0e7f3ec9664c90cb9dc6df4a80b016f474eaa4 - sha256sums = d5d4f97f520d58ddb8f2552800f946c2ab6c89c3dd105b7a9cd777b9925bc17e - sha256sums = 4c87a84ec39e677fe2922a5e78cf68cf508ec8dff5211193b11aac7cb1cf4211 + b2sums = bfd83d1e3cfc691a0e0c81420223968cf7d7358e31a8bf6ed459a87a7dc589e1b805983450c3755524965cd3d89d83197089a12c0dc6087957ba892838c2058c + b2sums = e14717693a06411bd9703f8e627ba424f11eefc9640ad60e7deac05be75eaa5615b623bcb95291982735225fc7971e21d49540624b91dd8e597d651ed0cfb526 + b2sums = 0b7ae3fef150e5f6d2c9ac12abceaab2cf5de9a5ed33005f4aed8c87fc6fad2d1d0d56b37fa46183d7a190020cac7edb1c8e477a92ba58d6bc22fdf87fcb4bc0 pkgname = jalview - diff --git a/.gitignore b/.gitignore index 1a1759ec34ca..f720d3781b62 100644 --- a/.gitignore +++ b/.gitignore @@ -1,240 +1,6 @@ -*.pkg.tar.* -*.jar -jalview.jnlp -pkg -src - -### https://raw.github.com/github/gitignore/0c5ace9de99c220bb69012581d68ca6fa977449b/Python.gitignore - -# Byte-compiled / optimized / DLL files -__pycache__/ -*.py[cod] -*$py.class - -# C extensions -*.so - -# Distribution / packaging -.Python -build/ -develop-eggs/ -dist/ -downloads/ -eggs/ -.eggs/ -lib/ -lib64/ -parts/ -sdist/ -var/ -wheels/ -*.egg-info/ -.installed.cfg -*.egg -MANIFEST - -# PyInstaller -# Usually these files are written by a python script from a template -# before PyInstaller builds the exe, so as to inject date/other infos into it. -*.manifest -*.spec - -# Installer logs -pip-log.txt -pip-delete-this-directory.txt - -# Unit test / coverage reports -htmlcov/ -.tox/ -.coverage -.coverage.* -.cache -nosetests.xml -coverage.xml -*.cover -.hypothesis/ - -# Translations -*.mo -*.pot - -# Django stuff: -*.log -.static_storage/ -.media/ -local_settings.py - -# Flask stuff: -instance/ -.webassets-cache - -# Scrapy stuff: -.scrapy - -# Sphinx documentation -docs/_build/ - -# PyBuilder -target/ - -# Jupyter Notebook -.ipynb_checkpoints - -# pyenv -.python-version - -# celery beat schedule file -celerybeat-schedule - -# SageMath parsed files -*.sage.py - -# Environments -.env -.venv -env/ -venv/ -ENV/ -env.bak/ -venv.bak/ - -# Spyder project settings -.spyderproject -.spyproject - -# Rope project settings -.ropeproject - -# mkdocs documentation -/site - -# mypy -.mypy_cache/ - - -### https://raw.github.com/github/gitignore/0c5ace9de99c220bb69012581d68ca6fa977449b/Python.gitignore - -# Byte-compiled / optimized / DLL files -__pycache__/ -*.py[cod] -*$py.class - -# C extensions -*.so - -# Distribution / packaging -.Python -build/ -develop-eggs/ -dist/ -downloads/ -eggs/ -.eggs/ -lib/ -lib64/ -parts/ -sdist/ -var/ -wheels/ -*.egg-info/ -.installed.cfg -*.egg -MANIFEST - -# PyInstaller -# Usually these files are written by a python script from a template -# before PyInstaller builds the exe, so as to inject date/other infos into it. -*.manifest -*.spec - -# Installer logs -pip-log.txt -pip-delete-this-directory.txt - -# Unit test / coverage reports -htmlcov/ -.tox/ -.coverage -.coverage.* -.cache -nosetests.xml -coverage.xml -*.cover -.hypothesis/ - -# Translations -*.mo -*.pot - -# Django stuff: -*.log -.static_storage/ -.media/ -local_settings.py - -# Flask stuff: -instance/ -.webassets-cache - -# Scrapy stuff: -.scrapy - -# Sphinx documentation -docs/_build/ - -# PyBuilder -target/ - -# Jupyter Notebook -.ipynb_checkpoints - -# pyenv -.python-version - -# celery beat schedule file -celerybeat-schedule - -# SageMath parsed files -*.sage.py - -# Environments -.env -.venv -env/ -venv/ -ENV/ -env.bak/ -venv.bak/ - -# Spyder project settings -.spyderproject -.spyproject - -# Rope project settings -.ropeproject - -# mkdocs documentation -/site - -# mypy -.mypy_cache/ - - -### https://raw.github.com/github/gitignore/0c5ace9de99c220bb69012581d68ca6fa977449b/Global/Vim.gitignore - -# Swap -[._]*.s[a-v][a-z] -[._]*.sw[a-p] -[._]s[a-v][a-z] -[._]sw[a-p] - -# Session -Session.vim - -# Temporary -.netrwhist -*~ -# Auto-generated tag files -tags - - +* +!PKGBUILD +!.SRCINFO +!.gitignore +!.desktop +!jalview @@ -1,196 +1,39 @@ -# Maintainer: Stefan Seemayer <mail@semicolonsoftware.de> +#!/bin/bash + +# Maintainer: PumpkinCheshire <me at pumpkincheshire dot com> +# Contributor: Felix Golatofski <contact@xdfr.de> +# Contributor: Stefan Seemayer <mail@semicolonsoftware.de> + pkgname=jalview -pkgver=2.10.4 -pkgrel=1 -pkgdesc="Bioinformatics Multiple Alignment Editor" +pkgver=2.11.2.0 +pkgrel=2 +pkgdesc='Bioinformatics Multiple Alignment Editor' arch=(any) -url="http://www.jalview.org/" +url='https://www.jalview.org/' license=('GPL3') -depends=(java-runtime) - -####### Auto-generated using update_sources.sh -### <INJECT_HERE> ### - +depends=('java-runtime') +makedepends=('tar') source=( - 'http://www.jalview.org/webstart/jalview.jar' - 'http://www.jalview.org/webstart/JGoogleAnalytics_0.3.jar' - 'http://www.jalview.org/webstart/Jmol-14.6.4_2016.10.26.jar' - 'http://www.jalview.org/webstart/VARNAv3-93.jar' - 'http://www.jalview.org/webstart/VAqua4.jar' - 'http://www.jalview.org/webstart/activation.jar' - 'http://www.jalview.org/webstart/apache-mime4j-0.6.jar' - 'http://www.jalview.org/webstart/axis.jar' - 'http://www.jalview.org/webstart/biojava-core-4.1.0.jar' - 'http://www.jalview.org/webstart/biojava-ontology-4.1.0.jar' - 'http://www.jalview.org/webstart/castor-1.1-cycle-xml.jar' - 'http://www.jalview.org/webstart/commons-codec-1.3.jar' - 'http://www.jalview.org/webstart/commons-discovery.jar' - 'http://www.jalview.org/webstart/commons-logging-1.1.1.jar' - 'http://www.jalview.org/webstart/groovy-all-2.4.12-indy.jar' - 'http://www.jalview.org/webstart/htsjdk-1.133.jar' - 'http://www.jalview.org/webstart/httpclient-4.0.3.jar' - 'http://www.jalview.org/webstart/httpcore-4.0.1.jar' - 'http://www.jalview.org/webstart/httpmime-4.0.3.jar' - 'http://www.jalview.org/webstart/jabaws-min-client-2.2.0.jar' - 'http://www.jalview.org/webstart/jalview_jnlp_vm.jar' - 'http://www.jalview.org/webstart/java-json.jar' - 'http://www.jalview.org/webstart/jaxrpc.jar' - 'http://www.jalview.org/webstart/jdas-1.0.4.jar' - 'http://www.jalview.org/webstart/jersey-client-1.19.jar' - 'http://www.jalview.org/webstart/jersey-core-1.19.jar' - 'http://www.jalview.org/webstart/jersey-json-1.19.jar' - 'http://www.jalview.org/webstart/jetty-http-9.2.10.v20150310.jar' - 'http://www.jalview.org/webstart/jetty-io-9.2.10.v20150310.jar' - 'http://www.jalview.org/webstart/jetty-server-9.2.10.v20150310.jar' - 'http://www.jalview.org/webstart/jetty-util-9.2.10.v20150310.jar' - 'http://www.jalview.org/webstart/jfreesvg-2.1.jar' - 'http://www.jalview.org/webstart/jhall.jar' - 'http://www.jalview.org/webstart/json_simple-1.1.jar' - 'http://www.jalview.org/webstart/jsoup-1.8.1.jar' - 'http://www.jalview.org/webstart/jsr311-api-1.1.1.jar' - 'http://www.jalview.org/webstart/jswingreader-0.3.jar' - 'http://www.jalview.org/webstart/log4j-to-slf4j-2.0-rc2.jar' - 'http://www.jalview.org/webstart/mail.jar' - 'http://www.jalview.org/webstart/miglayout-4.0-swing.jar' - 'http://www.jalview.org/webstart/regex.jar' - 'http://www.jalview.org/webstart/saaj.jar' - 'http://www.jalview.org/webstart/servlet-api-3.1.jar' - 'http://www.jalview.org/webstart/slf4j-api-1.7.7.jar' - 'http://www.jalview.org/webstart/slf4j-log4j12-1.7.7.jar' - 'http://www.jalview.org/webstart/spring-core-3.0.5.RELEASE.jar' - 'http://www.jalview.org/webstart/spring-web-3.0.5.RELEASE.jar' - 'http://www.jalview.org/webstart/vamsas-client.jar' - 'http://www.jalview.org/webstart/wsdl4j.jar' - 'http://www.jalview.org/webstart/xercesImpl.jar' - 'http://www.jalview.org/webstart/xml-apis.jar' - 'logo.gif' - 'jalview' - 'jalview.desktop' -) - -noextract=( - 'jalview.jar' - 'JGoogleAnalytics_0.3.jar' - 'Jmol-14.6.4_2016.10.26.jar' - 'VARNAv3-93.jar' - 'VAqua4.jar' - 'activation.jar' - 'apache-mime4j-0.6.jar' - 'axis.jar' - 'biojava-core-4.1.0.jar' - 'biojava-ontology-4.1.0.jar' - 'castor-1.1-cycle-xml.jar' - 'commons-codec-1.3.jar' - 'commons-discovery.jar' - 'commons-logging-1.1.1.jar' - 'groovy-all-2.4.12-indy.jar' - 'htsjdk-1.133.jar' - 'httpclient-4.0.3.jar' - 'httpcore-4.0.1.jar' - 'httpmime-4.0.3.jar' - 'jabaws-min-client-2.2.0.jar' - 'jalview_jnlp_vm.jar' - 'java-json.jar' - 'jaxrpc.jar' - 'jdas-1.0.4.jar' - 'jersey-client-1.19.jar' - 'jersey-core-1.19.jar' - 'jersey-json-1.19.jar' - 'jetty-http-9.2.10.v20150310.jar' - 'jetty-io-9.2.10.v20150310.jar' - 'jetty-server-9.2.10.v20150310.jar' - 'jetty-util-9.2.10.v20150310.jar' - 'jfreesvg-2.1.jar' - 'jhall.jar' - 'json_simple-1.1.jar' - 'jsoup-1.8.1.jar' - 'jsr311-api-1.1.1.jar' - 'jswingreader-0.3.jar' - 'log4j-to-slf4j-2.0-rc2.jar' - 'mail.jar' - 'miglayout-4.0-swing.jar' - 'regex.jar' - 'saaj.jar' - 'servlet-api-3.1.jar' - 'slf4j-api-1.7.7.jar' - 'slf4j-log4j12-1.7.7.jar' - 'spring-core-3.0.5.RELEASE.jar' - 'spring-web-3.0.5.RELEASE.jar' - 'vamsas-client.jar' - 'wsdl4j.jar' - 'xercesImpl.jar' - 'xml-apis.jar' + "http://www.jalview.org/getdown/release/install4j/1.8/jalview-2_11_2_0-unix-java_8.tar.gz" + 'jalview' + 'jalview.desktop' ) - -sha256sums=( - 'f0824ec5e2f0937ea40cb5e8714abd90ce02a1f57373565165d5a5b927cae2bc' - 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'9dde6a5de2d5480e2a1c5a7797979c8508c9d43967ebc5732a702da954921a6b' - '2216d27e24e0fc90ab6878491b2fd99bb06390c608f8d4e3e9cbb489bdeb50c6' - 'd35b7e51699f9aa0df15e190d6b582504340efcacb951b57fe69e0c7bffc0440' - '457cea1c8a488ea58ef6ff41fa2591e0fc55d066878ee2017b5386d69d1f80cd' - '027dba0cc3b13e2ca9e2fd93c8bcc5fc90d06ddb5d50cc369294d55d9d4abe44' - '362790ef6d3e3c537a6d31663a0e7f3ec9664c90cb9dc6df4a80b016f474eaa4' - 'd5d4f97f520d58ddb8f2552800f946c2ab6c89c3dd105b7a9cd777b9925bc17e' - '4c87a84ec39e677fe2922a5e78cf68cf508ec8dff5211193b11aac7cb1cf4211' -) - -### </INJECT_HERE> ### +noextract=("jalview-2_11_2_0-unix-java_8.tar.gz") +b2sums=('bfd83d1e3cfc691a0e0c81420223968cf7d7358e31a8bf6ed459a87a7dc589e1b805983450c3755524965cd3d89d83197089a12c0dc6087957ba892838c2058c' + 'e14717693a06411bd9703f8e627ba424f11eefc9640ad60e7deac05be75eaa5615b623bcb95291982735225fc7971e21d49540624b91dd8e597d651ed0cfb526' + '0b7ae3fef150e5f6d2c9ac12abceaab2cf5de9a5ed33005f4aed8c87fc6fad2d1d0d56b37fa46183d7a190020cac7edb1c8e477a92ba58d6bc22fdf87fcb4bc0') + +prepare() { + mkdir -p ./$pkgname-$pkgver + tar -xzvf ./*.tar.gz -C ./$pkgname-$pkgver --strip-components 1 +} package() { - cd "$srcdir/" + install -Dm755 -t "$pkgdir/usr/bin/" "$pkgname" + install -Dm644 -t "$pkgdir/usr/share/applications/" 'jalview.desktop' - # set up directory structure - mkdir -p $pkgdir/usr/{share/{applications,pixmaps,java/$pkgname},bin} + install -Dm644 -t "$pkgdir/usr/share/java/$pkgname" "$srcdir/$pkgname-$pkgver/release/"*.jar - install -Dm644 *.jar $pkgdir/usr/share/java/$pkgname/ - install -Dm755 jalview $pkgdir/usr/bin/ - install -Dm644 logo.gif $pkgdir/usr/share/pixmaps/jalview.gif - install -Dm644 jalview.desktop $pkgdir/usr/share/applications/ + install -Dm644 "$srcdir/$pkgname-$pkgver/resource/jalview_logo.png" "$pkgdir/usr/share/pixmaps/jalview_logo.png" + # install -Dm644 "$srcdir/$pkgname-$pkgver/resource/jalview_logos.ico" "$pkgdir/usr/share/pixmaps/jalview_logos.ico" } - -# vim:set ts=2 sw=2 et: diff --git a/jalview b/jalview index c1c64c839c08..dab8b9d022b0 100755..100644 --- a/jalview +++ b/jalview @@ -5,8 +5,7 @@ mainclass="jalview.bin.Jalview" basedir="/usr/share/java/$progname" # build classpath: all jars in $basedir -cp=$( ls $basedir/*.jar | xargs echo | sed "s/ /:/g" ); - +cp=$(ls $basedir/*.jar | xargs echo | sed "s/ /:/g") # run jar -"$JAVA_HOME/bin/java" -cp $cp $mainclass +"/usr/bin/java" -cp $cp $mainclass diff --git a/jalview.desktop b/jalview.desktop index af5ccfb89830..4ce81ce47c8b 100644 --- a/jalview.desktop +++ b/jalview.desktop @@ -2,7 +2,7 @@ Name=Jalview Comment=A multiple alignment editor Exec=jalview -Icon=/usr/share/pixmaps/jalview.gif +Icon=/usr/share/pixmaps/jalview_logos.png StartupNotify=true Type=Application Categories=Education;Science;Bioinformatics; diff --git a/update_sources.py b/update_sources.py index c089ee02b7ba..8ef2ca5e7523 100755..100644 --- a/update_sources.py +++ b/update_sources.py @@ -5,8 +5,8 @@ import sys from requests.compat import urljoin import xml.etree.ElementTree as ET -JNLP_SOURCE = 'http://www.jalview.org/webstart/jalview.jnlp' -BASE_URL = 'http://www.jalview.org/webstart/' +JNLP_SOURCE = 'https://www.jalview.org/webstart/jalview.jnlp' +BASE_URL = 'https://www.jalview.org/webstart/' EXTRA_SOURCES = [ ("logo.gif", '362790ef6d3e3c537a6d31663a0e7f3ec9664c90cb9dc6df4a80b016f474eaa4'), |