Commit 09c45d92 authored by Jasper Koehorst's avatar Jasper Koehorst
Browse files

Merge branch 'dev'

parents 0ed86b58 1abb28a8
Pipeline #35929 passed with stage
in 2 minutes and 41 seconds
......@@ -15,7 +15,7 @@ test_build_dev:
stage: test_build
script:
- ./build.sh
- FILENAME=./build/libs/data-interface-1.0.1.jar
- FILENAME=./build/libs/fairds-1.0.1.jar
- /scripts/upload.sh $FILENAME
only:
- dev
......@@ -25,7 +25,7 @@ test_build_master:
stage: test_build
script:
- ./build.sh
- FILENAME=./build/libs/data-interface-1.0.1.jar
- FILENAME=./build/libs/fairds-1.0.1.jar
- /scripts/upload.sh $FILENAME
only:
- master
#
# NOTICE: this is an auto-generated file
#
# This file sets the default parameters for manual `pnpm install`.
#
shamefully-hoist=true
{
"IRODSAdminUser": "adminuser",
"IRODSAdminPassword": "password",
"IRODSHost": "unlock-icat.irods.surfsara.nl",
"IRODSZone": "unlock",
"IRODSPort": 1247,
"IRODSSSLNegotiationPolicy": "CS_NEG_REQUIRE",
"IRODSAuthScheme": "STANDARD",
"certificateTrustStore": "/Users/jasperk/.irods_wur/keystore.jks",
"certificateTrustStorePassword": "randompassword",
"metadataXLSX": "./metadata.xlsx",
"debug": false
}
/******************************************************************************
* This file is auto-generated by Vaadin.
* If you want to customize the entry point, you can copy this file or create
* your own `index.ts` in your frontend directory.
* By default, the `index.ts` file should be in `./frontend/` folder.
*
* NOTE:
* - You need to restart the dev-server after adding the new `index.ts` file.
* After that, all modifications to `index.ts` are recompiled automatically.
* - `index.js` is also supported if you don't want to use TypeScript.
******************************************************************************/
// import Vaadin client-router to handle client-side and server-side navigation
import { Router } from '@vaadin/router';
// import Flow module to enable navigation to Vaadin server-side views
import { Flow } from '@vaadin/flow-frontend/Flow';
const { serverSideRoutes } = new Flow({
imports: () => import('../../build/frontend/generated-flow-imports')
});
const routes = [
// for client-side, place routes below (more info https://vaadin.com/docs/v15/flow/typescript/creating-routes.html)
// for server-side, the next magic line sends all unmatched routes:
...serverSideRoutes // IMPORTANT: this must be the last entry in the array
];
// Vaadin router needs an outlet in the index.html page to display views
const router = new Router(document.querySelector('#outlet'));
router.setRoutes(routes);
import './index';
import '@vaadin/flow-frontend/VaadinDevmodeGizmo.js';
vaadinVersion=14.7.3
\ No newline at end of file
vaadinVersion=14.7.3
#Thu Jan 30 08:04:25 EET 2020
distributionUrl=https\://services.gradle.org/distributions/gradle-7.3-all.zip
distributionBase=GRADLE_USER_HOME
distributionPath=wrapper/dists
distributionUrl=https\://services.gradle.org/distributions/gradle-7.3.1-bin.zip
zipStoreBase=GRADLE_USER_HOME
zipStorePath=wrapper/dists
zipStoreBase=GRADLE_USER_HOME
#!/bin/sh
#
# Copyright ? 2015-2021 the original authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# https://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
#
#!/usr/bin/env sh
##############################################################################
#
# Gradle start up script for POSIX generated by Gradle.
#
# Important for running:
#
# (1) You need a POSIX-compliant shell to run this script. If your /bin/sh is
# noncompliant, but you have some other compliant shell such as ksh or
# bash, then to run this script, type that shell name before the whole
# command line, like:
#
# ksh Gradle
#
# Busybox and similar reduced shells will NOT work, because this script
# requires all of these POSIX shell features:
# * functions;
# * expansions ?$var?, ?${var}?, ?${var:-default}?, ?${var+SET}?,
# ?${var#prefix}?, ?${var%suffix}?, and ?$( cmd )?;
# * compound commands having a testable exit status, especially ?case?;
# * various built-in commands including ?command?, ?set?, and ?ulimit?.
#
# Important for patching:
#
# (2) This script targets any POSIX shell, so it avoids extensions provided
# by Bash, Ksh, etc; in particular arrays are avoided.
#
# The "traditional" practice of packing multiple parameters into a
# space-separated string is a well documented source of bugs and security
# problems, so this is (mostly) avoided, by progressively accumulating
# options in "$@", and eventually passing that to Java.
#
# Where the inherited environment variables (DEFAULT_JVM_OPTS, JAVA_OPTS,
# and GRADLE_OPTS) rely on word-splitting, this is performed explicitly;
# see the in-line comments for details.
#
# There are tweaks for specific operating systems such as AIX, CygWin,
# Darwin, MinGW, and NonStop.
#
# (3) This script is generated from the Groovy template
# https://github.com/gradle/gradle/blob/master/subprojects/plugins/src/main/resources/org/gradle/api/internal/plugins/unixStartScript.txt
# within the Gradle project.
#
# You can find Gradle at https://github.com/gradle/gradle/.
#
##
## Gradle start up script for UN*X
##
##############################################################################
# Attempt to set APP_HOME
# Resolve links: $0 may be a link
app_path=$0
# Need this for daisy-chained symlinks.
while
APP_HOME=${app_path%"${app_path##*/}"} # leaves a trailing /; empty if no leading path
[ -h "$app_path" ]
do
ls=$( ls -ld "$app_path" )
link=${ls#*' -> '}
case $link in #(
/*) app_path=$link ;; #(
*) app_path=$APP_HOME$link ;;
esac
PRG="$0"
# Need this for relative symlinks.
while [ -h "$PRG" ] ; do
ls=`ls -ld "$PRG"`
link=`expr "$ls" : '.*-> \(.*\)$'`
if expr "$link" : '/.*' > /dev/null; then
PRG="$link"
else
PRG=`dirname "$PRG"`"/$link"
fi
done
APP_HOME=$( cd "${APP_HOME:-./}" && pwd -P ) || exit
SAVED="`pwd`"
cd "`dirname \"$PRG\"`/" >/dev/null
APP_HOME="`pwd -P`"
cd "$SAVED" >/dev/null
APP_NAME="Gradle"
APP_BASE_NAME=${0##*/}
APP_BASE_NAME=`basename "$0"`
# Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script.
DEFAULT_JVM_OPTS='"-Xmx64m" "-Xms64m"'
DEFAULT_JVM_OPTS=""
# Use the maximum available, or set MAX_FD != -1 to use that value.
MAX_FD=maximum
MAX_FD="maximum"
warn () {
echo "$*"
} >&2
}
die () {
echo
echo "$*"
echo
exit 1
} >&2
}
# OS specific support (must be 'true' or 'false').
cygwin=false
msys=false
darwin=false
nonstop=false
case "$( uname )" in #(
CYGWIN* ) cygwin=true ;; #(
Darwin* ) darwin=true ;; #(
MSYS* | MINGW* ) msys=true ;; #(
NONSTOP* ) nonstop=true ;;
case "`uname`" in
CYGWIN* )
cygwin=true
;;
Darwin* )
darwin=true
;;
MINGW* )
msys=true
;;
NONSTOP* )
nonstop=true
;;
esac
CLASSPATH=$APP_HOME/gradle/wrapper/gradle-wrapper.jar
# Determine the Java command to use to start the JVM.
if [ -n "$JAVA_HOME" ] ; then
if [ -x "$JAVA_HOME/jre/sh/java" ] ; then
# IBM's JDK on AIX uses strange locations for the executables
JAVACMD=$JAVA_HOME/jre/sh/java
JAVACMD="$JAVA_HOME/jre/sh/java"
else
JAVACMD=$JAVA_HOME/bin/java
JAVACMD="$JAVA_HOME/bin/java"
fi
if [ ! -x "$JAVACMD" ] ; then
die "ERROR: JAVA_HOME is set to an invalid directory: $JAVA_HOME
......@@ -132,7 +81,7 @@ Please set the JAVA_HOME variable in your environment to match the
location of your Java installation."
fi
else
JAVACMD=java
JAVACMD="java"
which java >/dev/null 2>&1 || die "ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH.
Please set the JAVA_HOME variable in your environment to match the
......@@ -140,95 +89,84 @@ location of your Java installation."
fi
# Increase the maximum file descriptors if we can.
if ! "$cygwin" && ! "$darwin" && ! "$nonstop" ; then
case $MAX_FD in #(
max*)
MAX_FD=$( ulimit -H -n ) ||
warn "Could not query maximum file descriptor limit"
esac
case $MAX_FD in #(
'' | soft) :;; #(
*)
ulimit -n "$MAX_FD" ||
warn "Could not set maximum file descriptor limit to $MAX_FD"
esac
if [ "$cygwin" = "false" -a "$darwin" = "false" -a "$nonstop" = "false" ] ; then
MAX_FD_LIMIT=`ulimit -H -n`
if [ $? -eq 0 ] ; then
if [ "$MAX_FD" = "maximum" -o "$MAX_FD" = "max" ] ; then
MAX_FD="$MAX_FD_LIMIT"
fi
ulimit -n $MAX_FD
if [ $? -ne 0 ] ; then
warn "Could not set maximum file descriptor limit: $MAX_FD"
fi
else
warn "Could not query maximum file descriptor limit: $MAX_FD_LIMIT"
fi
fi
# Collect all arguments for the java command, stacking in reverse order:
# * args from the command line
# * the main class name
# * -classpath
# * -D...appname settings
# * --module-path (only if needed)
# * DEFAULT_JVM_OPTS, JAVA_OPTS, and GRADLE_OPTS environment variables.
# For Cygwin or MSYS, switch paths to Windows format before running java
if "$cygwin" || "$msys" ; then
APP_HOME=$( cygpath --path --mixed "$APP_HOME" )
CLASSPATH=$( cygpath --path --mixed "$CLASSPATH" )
JAVACMD=$( cygpath --unix "$JAVACMD" )
# For Darwin, add options to specify how the application appears in the dock
if $darwin; then
GRADLE_OPTS="$GRADLE_OPTS \"-Xdock:name=$APP_NAME\" \"-Xdock:icon=$APP_HOME/media/gradle.icns\""
fi
# For Cygwin, switch paths to Windows format before running java
if $cygwin ; then
APP_HOME=`cygpath --path --mixed "$APP_HOME"`
CLASSPATH=`cygpath --path --mixed "$CLASSPATH"`
JAVACMD=`cygpath --unix "$JAVACMD"`
# We build the pattern for arguments to be converted via cygpath
ROOTDIRSRAW=`find -L / -maxdepth 1 -mindepth 1 -type d 2>/dev/null`
SEP=""
for dir in $ROOTDIRSRAW ; do
ROOTDIRS="$ROOTDIRS$SEP$dir"
SEP="|"
done
OURCYGPATTERN="(^($ROOTDIRS))"
# Add a user-defined pattern to the cygpath arguments
if [ "$GRADLE_CYGPATTERN" != "" ] ; then
OURCYGPATTERN="$OURCYGPATTERN|($GRADLE_CYGPATTERN)"
fi
# Now convert the arguments - kludge to limit ourselves to /bin/sh
for arg do
if
case $arg in #(
-*) false ;; # don't mess with options #(
/?*) t=${arg#/} t=/${t%%/*} # looks like a POSIX filepath
[ -e "$t" ] ;; #(
*) false ;;
esac
then
arg=$( cygpath --path --ignore --mixed "$arg" )
i=0
for arg in "$@" ; do
CHECK=`echo "$arg"|egrep -c "$OURCYGPATTERN" -`
CHECK2=`echo "$arg"|egrep -c "^-"` ### Determine if an option
if [ $CHECK -ne 0 ] && [ $CHECK2 -eq 0 ] ; then ### Added a condition
eval `echo args$i`=`cygpath --path --ignore --mixed "$arg"`
else
eval `echo args$i`="\"$arg\""
fi
# Roll the args list around exactly as many times as the number of
# args, so each arg winds up back in the position where it started, but
# possibly modified.
#
# NB: a `for` loop captures its iteration list before it begins, so
# changing the positional parameters here affects neither the number of
# iterations, nor the values presented in `arg`.
shift # remove old arg
set -- "$@" "$arg" # push replacement arg
i=$((i+1))
done
case $i in
(0) set -- ;;
(1) set -- "$args0" ;;
(2) set -- "$args0" "$args1" ;;
(3) set -- "$args0" "$args1" "$args2" ;;
(4) set -- "$args0" "$args1" "$args2" "$args3" ;;
(5) set -- "$args0" "$args1" "$args2" "$args3" "$args4" ;;
(6) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" ;;
(7) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" ;;
(8) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" "$args7" ;;
(9) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" "$args7" "$args8" ;;
esac
fi
# Collect all arguments for the java command;
# * $DEFAULT_JVM_OPTS, $JAVA_OPTS, and $GRADLE_OPTS can contain fragments of
# shell script including quotes and variable substitutions, so put them in
# double quotes to make sure that they get re-expanded; and
# * put everything else in single quotes, so that it's not re-expanded.
set -- \
"-Dorg.gradle.appname=$APP_BASE_NAME" \
-classpath "$CLASSPATH" \
org.gradle.wrapper.GradleWrapperMain \
"$@"
# Use "xargs" to parse quoted args.
#
# With -n1 it outputs one arg per line, with the quotes and backslashes removed.
#
# In Bash we could simply go:
#
# readarray ARGS < <( xargs -n1 <<<"$var" ) &&
# set -- "${ARGS[@]}" "$@"
#
# but POSIX shell has neither arrays nor command substitution, so instead we
# post-process each arg (as a line of input to sed) to backslash-escape any
# character that might be a shell metacharacter, then use eval to reverse
# that process (while maintaining the separation between arguments), and wrap
# the whole thing up as a single "set" statement.
#
# This will of course break if any of these variables contains a newline or
# an unmatched quote.
#
eval "set -- $(
printf '%s\n' "$DEFAULT_JVM_OPTS $JAVA_OPTS $GRADLE_OPTS" |
xargs -n1 |
sed ' s~[^-[:alnum:]+,./:=@_]~\\&~g; ' |
tr '\n' ' '
)" '"$@"'
# Escape application args
save () {
for i do printf %s\\n "$i" | sed "s/'/'\\\\''/g;1s/^/'/;\$s/\$/' \\\\/" ; done
echo " "
}
APP_ARGS=$(save "$@")
# Collect all arguments for the java command, following the shell quoting and substitution rules
eval set -- $DEFAULT_JVM_OPTS $JAVA_OPTS $GRADLE_OPTS "\"-Dorg.gradle.appname=$APP_BASE_NAME\"" -classpath "\"$CLASSPATH\"" org.gradle.wrapper.GradleWrapperMain "$APP_ARGS"
# by default we should be in the correct project dir, but when run from Finder on Mac, the cwd is wrong
if [ "$(uname)" = "Darwin" ] && [ "$HOME" = "$PWD" ]; then
cd "$(dirname "$0")"
fi
exec "$JAVACMD" "$@"
@rem
@rem Copyright 2015 the original author or authors.
@rem
@rem Licensed under the Apache License, Version 2.0 (the "License");
@rem you may not use this file except in compliance with the License.
@rem You may obtain a copy of the License at
@rem
@rem https://www.apache.org/licenses/LICENSE-2.0
@rem
@rem Unless required by applicable law or agreed to in writing, software
@rem distributed under the License is distributed on an "AS IS" BASIS,
@rem WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
@rem See the License for the specific language governing permissions and
@rem limitations under the License.
@rem
@if "%DEBUG%" == "" @echo off
@rem ##########################################################################
@rem
......@@ -29,18 +13,15 @@ if "%DIRNAME%" == "" set DIRNAME=.
set APP_BASE_NAME=%~n0
set APP_HOME=%DIRNAME%
@rem Resolve any "." and ".." in APP_HOME to make it shorter.
for %%i in ("%APP_HOME%") do set APP_HOME=%%~fi
@rem Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script.
set DEFAULT_JVM_OPTS="-Xmx64m" "-Xms64m"
set DEFAULT_JVM_OPTS=
@rem Find java.exe
if defined JAVA_HOME goto findJavaFromJavaHome
set JAVA_EXE=java.exe
%JAVA_EXE% -version >NUL 2>&1
if "%ERRORLEVEL%" == "0" goto execute
if "%ERRORLEVEL%" == "0" goto init
echo.
echo ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH.
......@@ -54,7 +35,7 @@ goto fail
set JAVA_HOME=%JAVA_HOME:"=%
set JAVA_EXE=%JAVA_HOME%/bin/java.exe
if exist "%JAVA_EXE%" goto execute
if exist "%JAVA_EXE%" goto init
echo.
echo ERROR: JAVA_HOME is set to an invalid directory: %JAVA_HOME%
......@@ -64,14 +45,28 @@ echo location of your Java installation.
goto fail
:init
@rem Get command-line arguments, handling Windows variants
if not "%OS%" == "Windows_NT" goto win9xME_args
:win9xME_args
@rem Slurp the command line arguments.
set CMD_LINE_ARGS=
set _SKIP=2
:win9xME_args_slurp
if "x%~1" == "x" goto execute
set CMD_LINE_ARGS=%*
:execute
@rem Setup the command line
set CLASSPATH=%APP_HOME%\gradle\wrapper\gradle-wrapper.jar
@rem Execute Gradle
"%JAVA_EXE%" %DEFAULT_JVM_OPTS% %JAVA_OPTS% %GRADLE_OPTS% "-Dorg.gradle.appname=%APP_BASE_NAME%" -classpath "%CLASSPATH%" org.gradle.wrapper.GradleWrapperMain %*
"%JAVA_EXE%" %DEFAULT_JVM_OPTS% %JAVA_OPTS% %GRADLE_OPTS% "-Dorg.gradle.appname=%APP_BASE_NAME%" -classpath "%CLASSPATH%" org.gradle.wrapper.GradleWrapperMain %CMD_LINE_ARGS%
:end
@rem End local scope for the variables with windows NT shell
......
{
"name": "no-name",
"license": "UNLICENSED",
"vaadin": {
"dependencies": {
"@polymer/iron-a11y-announcer": "3.0.2",
"@polymer/iron-a11y-keys-behavior": "3.0.1",
"@polymer/iron-fit-behavior": "3.0.2",
"@polymer/iron-flex-layout": "3.0.1",
"@polymer/iron-icon": "3.0.1",
"@polymer/iron-iconset-svg": "3.0.1",
"@polymer/iron-list": "3.1.0",
"@polymer/iron-media-query": "3.0.1",
"@polymer/iron-meta": "3.0.1",
"@polymer/iron-overlay-behavior": "3.0.3",
"@polymer/iron-resizable-behavior": "3.0.1",
"@polymer/iron-scroll-target-behavior": "3.0.1",
"@polymer/polymer": "3.2.0",
"@vaadin/vaadin-accordion": "1.2.0",
"@vaadin/vaadin-app-layout": "2.2.0",
"@vaadin/vaadin-avatar": "1.0.4",
"@vaadin/vaadin-board": "2.2.0",
"@vaadin/vaadin-button": "2.4.0",
"@vaadin/vaadin-charts": "6.3.3",
"@vaadin/vaadin-checkbox": "2.5.1",
"@vaadin/vaadin-combo-box": "5.4.8",
"@vaadin/vaadin-confirm-dialog": "1.3.0",
"@vaadin/vaadin-context-menu": "4.5.0",
"@vaadin/vaadin-control-state-mixin": "2.2.4",
"@vaadin/vaadin-cookie-consent": "1.2.0",
"@vaadin/vaadin-core-shrinkwrap": "14.7.3",
"@vaadin/vaadin-crud": "1.3.1",
"@vaadin/vaadin-custom-field": "1.3.1",
"@vaadin/vaadin-date-picker": "4.4.1",
"@vaadin/vaadin-date-time-picker": "1.4.0",
"@vaadin/vaadin-details": "1.2.0",
"@vaadin/vaadin-development-mode-detector": "2.0.4",
"@vaadin/vaadin-dialog": "2.5.2",
"@vaadin/vaadin-element-mixin": "2.4.2",
"@vaadin/vaadin-form-layout": "2.3.0",
"@vaadin/vaadin-grid": "5.8.4",
"@vaadin/vaadin-grid-pro": "2.3.0",
"@vaadin/vaadin-icons": "4.3.2",
"@vaadin/vaadin-item": "2.3.0",
"@vaadin/vaadin-list-box": "1.4.0",
"@vaadin/vaadin-list-mixin": "2.5.1",
"@vaadin/vaadin-login": "1.2.0",
"@vaadin/vaadin-lumo-styles": "1.6.1",
"@vaadin/vaadin-material-styles": "1.3.2",
"@vaadin/vaadin-menu-bar": "1.2.2",
"@vaadin/vaadin-messages": "1.0.1",
"@vaadin/vaadin-notification": "1.6.1",
"@vaadin/vaadin-ordered-layout": "1.4.0",
"@vaadin/vaadin-overlay": "3.5.1",
"@vaadin/vaadin-progress-bar": "1.3.0",
"@vaadin/vaadin-radio-button": "1.5.4",
"@vaadin/vaadin-rich-text-editor": "1.3.0",
"@vaadin/vaadin-select": "2.4.1",
"@vaadin/vaadin-split-layout": "4.3.0",
"@vaadin/vaadin-tabs": "3.2.0",
"@vaadin/vaadin-text-field": "2.8.6",
"@vaadin/vaadin-themable-mixin": "1.6.2",
"@vaadin/vaadin-time-picker": "2.4.0",
"@vaadin/vaadin-upload": "4.4.2",
"@vaadin/vaadin-usage-statistics": "2.1.0",
"@webcomponents/shadycss": "1.8.0",
"@webcomponents/webcomponentsjs": "^2.2.10",
"construct-style-sheets-polyfill": "2.4.16",
"lit-element": "2.5.1",
"lit-html": "1.4.1"
},
"devDependencies": {
"babel-loader": "8.2.2",
"chokidar": "^3.5.0",
"compression-webpack-plugin": "4.0.1",
"copy-webpack-plugin": "5.1.2",
"css-loader": "4.2.1",
"extra-watch-webpack-plugin": "1.0.3",
"extract-loader": "5.1.0",
"file-loader": "6.1.0",
"html-webpack-plugin": "4.5.2",
"lit-css-loader": "0.0.4",
"raw-loader": "3.1.0",
"ts-loader": "8.0.12",
"typescript": "4.0.3",
"webpack": "4.42.0",
"webpack-babel-multi-target-plugin": "2.5.0",
"webpack-cli": "3.3.11",
"webpack-dev-server": "3.11.0",
"webpack-merge": "4.2.2"
},
"hash": "025619f43d07b9298a4ab29162b4ad8ab5773e0519593e770440e059a2542f7f"
},
"dependencies": {
"@polymer/iron-a11y-announcer": "3.0.2",
"@polymer/iron-a11y-keys-behavior": "3.0.1",
"@polymer/iron-fit-behavior": "3.0.2",