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MarcAntoine-BeauvaisMarcAntoine-Beauvais
committedFeb 17, 2023
not working when native
1 parent 15ba23d commit 39ad193

20 files changed

+501
-0
lines changed
 

‎.gitignore

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*.iml
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.gradle
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/build
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.idea

‎README.md

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‎build.gradle

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plugins {
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id 'java'
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id 'io.quarkus'
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id 'org.graalvm.buildtools.native' version '0.9.13'
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id 'java-library'
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id "org.xbib.gradle.plugin.jflex" version "1.4.0"
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}
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java {
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toolchain {
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languageVersion.set(JavaLanguageVersion.of(17))
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vendor = JvmVendorSpec.matching("GraalVM Community")
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}
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}
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repositories {
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mavenCentral()
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mavenLocal()
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}
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dependencies {
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implementation enforcedPlatform("${quarkusPlatformGroupId}:${quarkusPlatformArtifactId}:${quarkusPlatformVersion}")
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implementation "io.quarkus:quarkus-resteasy-reactive-jackson:${quarkusPlatformVersion}"
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implementation "io.quarkus:quarkus-arc:${quarkusPlatformVersion}"
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implementation "io.quarkus:quarkus-smallrye-openapi:${quarkusPlatformVersion}"
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implementation "io.quarkus:quarkus-mongodb-panache:${quarkusPlatformVersion}"
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testImplementation "io.quarkus:quarkus-test-oidc-server:${quarkusPlatformVersion}"
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testImplementation "io.quarkus:quarkus-junit5:${quarkusPlatformVersion}"
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testImplementation "io.quarkus:quarkus-panache-mock:${quarkusPlatformVersion}"
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testImplementation 'io.rest-assured:rest-assured:4.5.1'
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}
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group 'com.me'
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version '0.0.1-SNAPSHOT'
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compileJava {
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options.encoding = 'UTF-8'
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options.compilerArgs << '-parameters'
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}
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compileTestJava {
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options.encoding = 'UTF-8'
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}

‎gradle.properties

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#Gradle properties
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#Wed Jul 06 16:18:33 PDT 2022
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quarkusPluginVersion=2.16.2.Final
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quarkusPlatformArtifactId=quarkus-bom
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quarkusPluginId=io.quarkus
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quarkusPlatformGroupId=io.quarkus.platform
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quarkusPlatformVersion=2.16.2.Final

‎gradle/wrapper/gradle-wrapper.jar

57.5 KB
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‎gradle/wrapper/gradle-wrapper.properties

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distributionBase=GRADLE_USER_HOME
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distributionPath=wrapper/dists
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distributionUrl=https\://services.gradle.org/distributions/gradle-8.0-bin.zip
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zipStoreBase=GRADLE_USER_HOME
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zipStorePath=wrapper/dists

‎gradlew

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#!/usr/bin/env sh
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#
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# Copyright 2015 the original author or authors.
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#
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# Licensed under the Apache License, Version 2.0 (the "License");
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# you may not use this file except in compliance with the License.
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# You may obtain a copy of the License at
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#
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# https://www.apache.org/licenses/LICENSE-2.0
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#
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# Unless required by applicable law or agreed to in writing, software
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# distributed under the License is distributed on an "AS IS" BASIS,
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# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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# See the License for the specific language governing permissions and
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# limitations under the License.
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#
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##############################################################################
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##
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## Gradle start up script for UN*X
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##
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##############################################################################
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# Attempt to set APP_HOME
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# Resolve links: $0 may be a link
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PRG="$0"
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# Need this for relative symlinks.
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while [ -h "$PRG" ] ; do
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ls=`ls -ld "$PRG"`
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link=`expr "$ls" : '.*-> \(.*\)$'`
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if expr "$link" : '/.*' > /dev/null; then
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PRG="$link"
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else
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PRG=`dirname "$PRG"`"/$link"
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fi
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done
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SAVED="`pwd`"
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cd "`dirname \"$PRG\"`/" >/dev/null
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APP_HOME="`pwd -P`"
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cd "$SAVED" >/dev/null
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APP_NAME="Gradle"
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APP_BASE_NAME=`basename "$0"`
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# Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script.
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DEFAULT_JVM_OPTS='"-Xmx64m" "-Xms64m"'
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# Use the maximum available, or set MAX_FD != -1 to use that value.
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MAX_FD="maximum"
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warn () {
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echo "$*"
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}
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die () {
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echo
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echo "$*"
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echo
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exit 1
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}
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# OS specific support (must be 'true' or 'false').
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cygwin=false
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msys=false
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darwin=false
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nonstop=false
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case "`uname`" in
69+
CYGWIN* )
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cygwin=true
71+
;;
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Darwin* )
73+
darwin=true
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;;
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MINGW* )
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msys=true
77+
;;
78+
NONSTOP* )
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nonstop=true
80+
;;
81+
esac
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CLASSPATH=$APP_HOME/gradle/wrapper/gradle-wrapper.jar
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# Determine the Java command to use to start the JVM.
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if [ -n "$JAVA_HOME" ] ; then
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if [ -x "$JAVA_HOME/jre/sh/java" ] ; then
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# IBM's JDK on AIX uses strange locations for the executables
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JAVACMD="$JAVA_HOME/jre/sh/java"
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else
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JAVACMD="$JAVA_HOME/bin/java"
93+
fi
94+
if [ ! -x "$JAVACMD" ] ; then
95+
die "ERROR: JAVA_HOME is set to an invalid directory: $JAVA_HOME
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Please set the JAVA_HOME variable in your environment to match the
98+
location of your Java installation."
99+
fi
100+
else
101+
JAVACMD="java"
102+
which java >/dev/null 2>&1 || die "ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH.
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104+
Please set the JAVA_HOME variable in your environment to match the
105+
location of your Java installation."
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fi
107+
108+
# Increase the maximum file descriptors if we can.
109+
if [ "$cygwin" = "false" -a "$darwin" = "false" -a "$nonstop" = "false" ] ; then
110+
MAX_FD_LIMIT=`ulimit -H -n`
111+
if [ $? -eq 0 ] ; then
112+
if [ "$MAX_FD" = "maximum" -o "$MAX_FD" = "max" ] ; then
113+
MAX_FD="$MAX_FD_LIMIT"
114+
fi
115+
ulimit -n $MAX_FD
116+
if [ $? -ne 0 ] ; then
117+
warn "Could not set maximum file descriptor limit: $MAX_FD"
118+
fi
119+
else
120+
warn "Could not query maximum file descriptor limit: $MAX_FD_LIMIT"
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fi
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fi
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# For Darwin, add options to specify how the application appears in the dock
125+
if $darwin; then
126+
GRADLE_OPTS="$GRADLE_OPTS \"-Xdock:name=$APP_NAME\" \"-Xdock:icon=$APP_HOME/media/gradle.icns\""
127+
fi
128+
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# For Cygwin or MSYS, switch paths to Windows format before running java
130+
if [ "$cygwin" = "true" -o "$msys" = "true" ] ; then
131+
APP_HOME=`cygpath --path --mixed "$APP_HOME"`
132+
CLASSPATH=`cygpath --path --mixed "$CLASSPATH"`
133+
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JAVACMD=`cygpath --unix "$JAVACMD"`
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# We build the pattern for arguments to be converted via cygpath
137+
ROOTDIRSRAW=`find -L / -maxdepth 1 -mindepth 1 -type d 2>/dev/null`
138+
SEP=""
139+
for dir in $ROOTDIRSRAW ; do
140+
ROOTDIRS="$ROOTDIRS$SEP$dir"
141+
SEP="|"
142+
done
143+
OURCYGPATTERN="(^($ROOTDIRS))"
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# Add a user-defined pattern to the cygpath arguments
145+
if [ "$GRADLE_CYGPATTERN" != "" ] ; then
146+
OURCYGPATTERN="$OURCYGPATTERN|($GRADLE_CYGPATTERN)"
147+
fi
148+
# Now convert the arguments - kludge to limit ourselves to /bin/sh
149+
i=0
150+
for arg in "$@" ; do
151+
CHECK=`echo "$arg"|egrep -c "$OURCYGPATTERN" -`
152+
CHECK2=`echo "$arg"|egrep -c "^-"` ### Determine if an option
153+
154+
if [ $CHECK -ne 0 ] && [ $CHECK2 -eq 0 ] ; then ### Added a condition
155+
eval `echo args$i`=`cygpath --path --ignore --mixed "$arg"`
156+
else
157+
eval `echo args$i`="\"$arg\""
158+
fi
159+
i=`expr $i + 1`
160+
done
161+
case $i in
162+
0) set -- ;;
163+
1) set -- "$args0" ;;
164+
2) set -- "$args0" "$args1" ;;
165+
3) set -- "$args0" "$args1" "$args2" ;;
166+
4) set -- "$args0" "$args1" "$args2" "$args3" ;;
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5) set -- "$args0" "$args1" "$args2" "$args3" "$args4" ;;
168+
6) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" ;;
169+
7) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" ;;
170+
8) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" "$args7" ;;
171+
9) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" "$args7" "$args8" ;;
172+
esac
173+
fi
174+
175+
# Escape application args
176+
save () {
177+
for i do printf %s\\n "$i" | sed "s/'/'\\\\''/g;1s/^/'/;\$s/\$/' \\\\/" ; done
178+
echo " "
179+
}
180+
APP_ARGS=`save "$@"`
181+
182+
# Collect all arguments for the java command, following the shell quoting and substitution rules
183+
eval set -- $DEFAULT_JVM_OPTS $JAVA_OPTS $GRADLE_OPTS "\"-Dorg.gradle.appname=$APP_BASE_NAME\"" -classpath "\"$CLASSPATH\"" org.gradle.wrapper.GradleWrapperMain "$APP_ARGS"
184+
185+
exec "$JAVACMD" "$@"

‎gradlew.bat

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@rem
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@rem Copyright 2015 the original author or authors.
3+
@rem
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@rem Licensed under the Apache License, Version 2.0 (the "License");
5+
@rem you may not use this file except in compliance with the License.
6+
@rem You may obtain a copy of the License at
7+
@rem
8+
@rem https://www.apache.org/licenses/LICENSE-2.0
9+
@rem
10+
@rem Unless required by applicable law or agreed to in writing, software
11+
@rem distributed under the License is distributed on an "AS IS" BASIS,
12+
@rem WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
13+
@rem See the License for the specific language governing permissions and
14+
@rem limitations under the License.
15+
@rem
16+
17+
@if "%DEBUG%" == "" @echo off
18+
@rem ##########################################################################
19+
@rem
20+
@rem Gradle startup script for Windows
21+
@rem
22+
@rem ##########################################################################
23+
24+
@rem Set local scope for the variables with windows NT shell
25+
if "%OS%"=="Windows_NT" setlocal
26+
27+
set DIRNAME=%~dp0
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if "%DIRNAME%" == "" set DIRNAME=.
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set APP_BASE_NAME=%~n0
30+
set APP_HOME=%DIRNAME%
31+
32+
@rem Resolve any "." and ".." in APP_HOME to make it shorter.
33+
for %%i in ("%APP_HOME%") do set APP_HOME=%%~fi
34+
35+
@rem Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script.
36+
set DEFAULT_JVM_OPTS="-Xmx64m" "-Xms64m"
37+
38+
@rem Find java.exe
39+
if defined JAVA_HOME goto findJavaFromJavaHome
40+
41+
set JAVA_EXE=java.exe
42+
%JAVA_EXE% -version >NUL 2>&1
43+
if "%ERRORLEVEL%" == "0" goto init
44+
45+
echo.
46+
echo ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH.
47+
echo.
48+
echo Please set the JAVA_HOME variable in your environment to match the
49+
echo location of your Java installation.
50+
51+
goto fail
52+
53+
:findJavaFromJavaHome
54+
set JAVA_HOME=%JAVA_HOME:"=%
55+
set JAVA_EXE=%JAVA_HOME%/bin/java.exe
56+
57+
if exist "%JAVA_EXE%" goto init
58+
59+
echo.
60+
echo ERROR: JAVA_HOME is set to an invalid directory: %JAVA_HOME%
61+
echo.
62+
echo Please set the JAVA_HOME variable in your environment to match the
63+
echo location of your Java installation.
64+
65+
goto fail
66+
67+
:init
68+
@rem Get command-line arguments, handling Windows variants
69+
70+
if not "%OS%" == "Windows_NT" goto win9xME_args
71+
72+
:win9xME_args
73+
@rem Slurp the command line arguments.
74+
set CMD_LINE_ARGS=
75+
set _SKIP=2
76+
77+
:win9xME_args_slurp
78+
if "x%~1" == "x" goto execute
79+
80+
set CMD_LINE_ARGS=%*
81+
82+
:execute
83+
@rem Setup the command line
84+
85+
set CLASSPATH=%APP_HOME%\gradle\wrapper\gradle-wrapper.jar
86+
87+
88+
@rem Execute Gradle
89+
"%JAVA_EXE%" %DEFAULT_JVM_OPTS% %JAVA_OPTS% %GRADLE_OPTS% "-Dorg.gradle.appname=%APP_BASE_NAME%" -classpath "%CLASSPATH%" org.gradle.wrapper.GradleWrapperMain %CMD_LINE_ARGS%
90+
91+
:end
92+
@rem End local scope for the variables with windows NT shell
93+
if "%ERRORLEVEL%"=="0" goto mainEnd
94+
95+
:fail
96+
rem Set variable GRADLE_EXIT_CONSOLE if you need the _script_ return code instead of
97+
rem the _cmd.exe /c_ return code!
98+
if not "" == "%GRADLE_EXIT_CONSOLE%" exit 1
99+
exit /b 1
100+
101+
:mainEnd
102+
if "%OS%"=="Windows_NT" endlocal
103+
104+
:omega

‎requests.http

Whitespace-only changes.

‎settings.gradle

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pluginManagement {
2+
repositories {
3+
mavenCentral()
4+
gradlePluginPortal()
5+
mavenLocal()
6+
}
7+
plugins {
8+
id "${quarkusPluginId}" version "${quarkusPluginVersion}"
9+
}
10+
}

‎src/main/java/com/me/MyApplication.java

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package com.me;
2+
3+
4+
import org.eclipse.microprofile.openapi.annotations.OpenAPIDefinition;
5+
import org.eclipse.microprofile.openapi.annotations.info.Info;
6+
7+
import javax.ws.rs.core.Application;
8+
9+
@OpenAPIDefinition(
10+
info = @Info(
11+
title = "FastaDb",
12+
version = "Overriden by quarkus.smallrye-openapi.info-version property."
13+
)
14+
)
15+
@SuppressWarnings("unused")
16+
public class MyApplication extends Application {
17+
}

‎src/main/java/com/me/entity/MyMongoEntity.java

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package com.me.entity;
2+
3+
import io.quarkus.mongodb.panache.PanacheMongoEntity;
4+
import io.quarkus.mongodb.panache.common.MongoEntity;
5+
6+
@MongoEntity(collection = "fasta_db_tmp")
7+
public class MyMongoEntity extends PanacheMongoEntity {
8+
9+
public String name;
10+
}

‎src/main/java/com/me/resource/MyResource.java

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1+
package com.me.resource;
2+
3+
import com.me.entity.MyMongoEntity;
4+
import com.me.resource.api.ResultApi;
5+
import io.quarkus.logging.Log;
6+
7+
import javax.ws.rs.Consumes;
8+
import javax.ws.rs.GET;
9+
import javax.ws.rs.Path;
10+
import javax.ws.rs.Produces;
11+
import javax.ws.rs.core.MediaType;
12+
13+
@Path("fasta_dbs")
14+
@Produces(MediaType.APPLICATION_JSON)
15+
@Consumes(MediaType.APPLICATION_JSON)
16+
public class MyResource {
17+
18+
@GET
19+
@Path("/")
20+
public ResultApi upload() {
21+
// Save these metadata into fasta_db_tmp
22+
MyMongoEntity myMongoEntity = new MyMongoEntity();
23+
myMongoEntity.name = "random name";
24+
myMongoEntity.persist();
25+
26+
Log.error("coucou");
27+
Log.error(myMongoEntity.id);
28+
29+
// Return these infos
30+
return new ResultApi(
31+
myMongoEntity.id.toString(),
32+
myMongoEntity.name
33+
);
34+
}
35+
36+
}

‎src/main/java/com/me/resource/api/ResultApi.java

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1+
package com.me.resource.api;
2+
3+
public record ResultApi(
4+
String id,
5+
String name
6+
) {
7+
}

‎src/main/resources/application.properties

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###################
2+
# Server
3+
quarkus.http.port=8080
4+
quarkus.http.test-port=8080
5+
quarkus.http.auth.basic=false
6+
###################
7+
# Database
8+
quarkus.mongodb.connection-string=mongodb://localhost:27017/?uuidRepresentation=standard
9+
quarkus.mongodb.database=fasta
10+
###################
11+
# Json serialization/deserialization
12+
quarkus.jackson.accept-case-insensitive-enums=true
13+
###################
14+
# OpenAPI/SwaggerUI
15+
# TODO change to false for production
16+
quarkus.swagger-ui.always-include=true
17+
quarkus.smallrye-openapi.info-version=${quarkus.application.version}
18+
quarkus.smallrye-openapi.security-scheme=oauth2

‎src/native-test/java/com/me/MyApplicationIT.java

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1+
package com.me;
2+
3+
import io.quarkus.test.junit.QuarkusIntegrationTest;
4+
5+
@QuarkusIntegrationTest
6+
public class MyApplicationIT extends MyApplicationTest {
7+
8+
// Execute the same tests but in native mode.
9+
}

‎src/native-test/java/com/me/resource/ApiResourceIT.java

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1+
package com.me.resource;
2+
3+
import io.quarkus.test.junit.QuarkusIntegrationTest;
4+
5+
@QuarkusIntegrationTest
6+
public class ApiResourceIT extends ApiResourceTest {
7+
}

‎src/test/java/com/me/MyApplicationTest.java

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1+
package com.me;
2+
3+
import io.quarkus.test.junit.QuarkusTest;
4+
import org.junit.jupiter.api.BeforeAll;
5+
import org.junit.jupiter.api.Test;
6+
import org.junit.jupiter.api.TestInstance;
7+
8+
9+
@QuarkusTest
10+
@TestInstance(TestInstance.Lifecycle.PER_CLASS)
11+
public class MyApplicationTest {
12+
13+
@BeforeAll
14+
public void setup() {
15+
}
16+
17+
@Test
18+
public void getTest() {
19+
}
20+
21+
}

‎src/test/java/com/me/resource/ApiResourceTest.java

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1+
package com.me.resource;
2+
3+
import io.quarkus.test.common.QuarkusTestResource;
4+
import io.quarkus.test.junit.QuarkusTest;
5+
import io.quarkus.test.oidc.server.OidcWiremockTestResource;
6+
import org.junit.jupiter.api.MethodOrderer;
7+
import org.junit.jupiter.api.TestInstance;
8+
import org.junit.jupiter.api.TestMethodOrder;
9+
10+
@QuarkusTest
11+
@QuarkusTestResource(OidcWiremockTestResource.class)
12+
@TestInstance(TestInstance.Lifecycle.PER_CLASS)
13+
@TestMethodOrder(MethodOrderer.OrderAnnotation.class)
14+
public class ApiResourceTest {
15+
16+
17+
}

‎src/test/resources/application.properties

Whitespace-only changes.

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