How to install Atlassian Confluence (using the "installer" download), using another JRE than the embedded one
=============================================================================================================
- When: 2019-04
- For Confluence 6.15.1
- On Linux/Unix (actually Fedora 29)
- See also: https://jira.atlassian.com/browse/CONFSERVER-57895 "Installing Confluence in OpenSUSE Tumbleweed through the installer fails"


So we have a problem because installation of Confluence using the binary INSTALL4J install module fails:

# bash atlassian-confluence-6.15.1-x64.bin 
Unpacking JRE ...
Starting Installer ...
java.lang.NullPointerException
        at sun.awt.FontConfiguration.getVersion(FontConfiguration.java:1264)
        at sun.awt.FontConfiguration.readFontConfigFile(FontConfiguration.java:219)
        at sun.awt.FontConfiguration.init(FontConfiguration.java:107)
        at sun.awt.X11FontManager.createFontConfiguration(X11FontManager.java:774)
        at sun.font.SunFontManager$2.run(SunFontManager.java:431)
        at java.security.AccessController.doPrivileged(Native Method)
        at sun.font.SunFontManager.<init>(SunFontManager.java:376)

...and the workarounds doesn't work: https://jira.atlassian.com/browse/CONFSERVER-57895

Let's install this with another JRE than the embedded one.

0) Go to your home directory (in this case, /home/fedora)

   cd ~

1) Download "atlassian-confluence-6.15.1-x64.bin" from https://www.atlassian.com/software/confluence/download
   and put it into the home directory.

   (Apparently there is a tar somewhere, but I didn't find it; maybe I'm getting confused with all that 
    playful 2019 web design)
    
   (Update: I'm stupid! The dropdown menu at said page has the option to get the tar.gz or zip file, so 
    if you are reading this it's better to get on with the tar.gz instead of unpacking elements the hard
    way as is done below. Go directly to page 
    https://confluence.atlassian.com/doc/installing-confluence-on-linux-from-archive-file-255362363.html
    OTOH, you may want to keep going with the installer-based way but still have problems, then read on)
    
   Check MD5 sum: 

   md5sum atlassian-confluence-6.15.1-x64.bin
   ff02e94f5fdf4718d76cea0583e57e8d  atlassian-confluence-6.15.1-x64.bin

   This file is a concatenation of:

   [A shell script (partly from install4j I reckon)]
   [The confluence server payload]
   [A tar.gz file that unpacks into Install4J stuff with an embedded JRE]

2) We won't rely on the embedded JRE! Make sure you have a Java 8 JRE on the system. In this case, I grab a 
   Java 8 JRE from Oracle and put it into my home dir under /home/fedora/jre/jre:

   cd ~
   mkdir jre
   cd jre
   tar xzf ../jre-8u201-linux-x64.tar.gz
   ln -s jre1.8.0_201 jre
   cd ~

3) On this system the system's JDK in /usr/local/java/jdk8_64_oracle

   Change this in "script.sh" as needed! See below!!

4) Create a directory for further installation operations.

   mkdir operations 
   cd operations

5) Extract the installation script (at the start of the binary). There are 673 lines of interest!

   head -673 ../atlassian-confluence-6.15.1-x64.bin > script.sh
   chmod +x script.sh

   This script needs some serious attention by a professional, it's not even indented right. Me sad!! :-(

6) Extract the "install4j installer" (at the far end of the binary)
   There are 53068000 byte of interest (found by inspecting the script.sh)

   tail -c 53068000 ../atlassian-confluence-6.15.1-x64.bin > sfx_archive.tar.gz

7) Good sizes?

   ls -l

    19292 Mar 30 15:15 script.sh
 53068000 Mar 30 15:15 sfx_archive.tar.gz

8) Unpack the installer and remove the embedded JRE

   mkdir sfx_archive
   cd sfx_archive
   tar xzf ../sfx_archive.tar.gz
   rm -f jre.tar.gz 

9) Skip over the installation of "fontconfig" package, we already have that!

  rpm --query fontconfig
  fontconfig-2.13.1-3.fc29.x86_64

   Yup we do.

10) Start editing the "script.sh"!

   cd ~/operations
   cp script.sh script.sh.orig
   vim script.sh

   a) Delete all the lines down to the second "#!/bin/sh" shebang line!
   b) Go to the line
 
   TAR_OPTIONS=...

   which is the first line beyond the function declarations

   c) Simplify all the stuff underneath as described below, change those constants accordingly.

   d) Results in a new script.sh.
   --> There is no need to patch the "module" (i.e. the original confluence download)

11) Run the script.sh as root (by sudo if need be)

12) On failure, you can always uninstall using

   /opt/atlassian/confluence/uninstall.sh

   As we have removed all the command to "remove recursive" after installation, temporary directory with
   files will be in /tmp/tmp_confluence_install_2019-03-30T15:27:22 or similar.

Script fragment to replace part of the original installation script follows:

-------8<-------8<-------8<-------8<-------
if [ -z "$app_java_home" ]; then
if [ -f "$app_home/.install4j/inst_jre.cfg" ]; then
    read file_jvm_home < "$app_home/.install4j/inst_jre.cfg"
    test_jvm "$file_jvm_home"
    if [ -z "$app_java_home" ] && [ $tested_jvm = "false" ]; then
if [ -f "$db_file" ]; then
  rm "$db_file" 2> /dev/null
fi
        test_jvm "$file_jvm_home"
    fi
fi
fi

}

# ============
# RIP & REPLACE WHITH WHAT IS BELOW
# ============

sfx_archive_dir=/home/fedora/operations/sfx_archive  # contains directory "user"!
jre_home=/home/fedora/jre/jre                    # our JRE!

# Create a temporary installation direction (won't delete this afterwards,
# you may want to do that yourself)

isodate=$(date +%Y-%m-%dT%H:%M:%S)
tmp_dir=/tmp/tmp_confluence_install_$isodate

mkdir "$tmp_dir" || {
    echo "Could not create dir $tmp_dir. Aborting."
    exit 1
}

cp -a "$sfx_archive_dir"/* "$tmp_dir"

cd "$sfx_archive_dir" || {
    echo "Could not cd to $sfx_archive_dir. Aborting."
    exit 1
}

sfx_dir_name=$(pwd)


local_classpath=""
i4j_classpath="i4jruntime.jar"
add_class_path "$i4j_classpath"

LD_LIBRARY_PATH="$sfx_dir_name/user:$LD_LIBRARY_PATH"
DYLD_LIBRARY_PATH="$sfx_dir_name/user:$DYLD_LIBRARY_PATH"
SHLIB_PATH="$sfx_dir_name/user:$SHLIB_PATH"
LIBPATH="$sfx_dir_name/user:$LIBPATH"
LD_LIBRARYN32_PATH="$sfx_dir_name/user:$LD_LIBRARYN32_PATH"
LD_LIBRARYN64_PATH="$sfx_dir_name/user:$LD_LIBRARYN64_PATH"
export LD_LIBRARY_PATH
export DYLD_LIBRARY_PATH
export SHLIB_PATH
export LIBPATH
export LD_LIBRARYN32_PATH
export LD_LIBRARYN64_PATH

# Add install4j debugging messages!

INSTALL4J_ADD_VM_PARAMS="$INSTALL4J_ADD_VM_PARAMS -Di4j.vpt=true -Dinstall4j.debug=true -Dinstall4j.logToStderr=true"

for param in $@; do
  if [ `echo "W$param" | cut -c -3` = "W-J" ]; then
    INSTALL4J_ADD_VM_PARAMS="$INSTALL4J_ADD_VM_PARAMS `echo "$param" | cut -c 3-`"
  fi
done

if [ "W$vmov_1" = "W" ]; then
  vmov_1="-Di4jv=0"
fi
if [ "W$vmov_2" = "W" ]; then
  vmov_2="-Di4jv=0"
fi
if [ "W$vmov_3" = "W" ]; then
  vmov_3="-Di4jv=0"
fi
if [ "W$vmov_4" = "W" ]; then
  vmov_4="-Di4jv=0"
fi
if [ "W$vmov_5" = "W" ]; then
  vmov_5="-Di4jv=0"
fi

echo "Starting Installer ..."

# Where is the System Java (not the same as the JRE used in installation)

app_java_home=/usr/local/java/jdk8_64_oracle

# The "module" is the file that we downloaded. The middle of the file contains the
# Confluence payload!

module_name="/home/fedora/atlassian-confluence-6.15.1-x64.bin"

old_pwd=/home/fedora

# Simplified command line running installer

"$jre_home/bin/java" \
"-Djava.awt.headless=true" \
-Dinstall4j.jvmDir="$app_java_home" \
-Dexe4j.moduleName="$module_name" \
-Dexe4j.totalDataLength=618037334 \
-Dinstall4j.cwd="$old_pwd" \
"-Dinstall4j.executionMode=console" \
"-Dsun.java2d.noddraw=true" \
"$vmov_1" \
"$vmov_2" \
"$vmov_3" \
"$vmov_4" \
"$vmov_5" \
$INSTALL4J_ADD_VM_PARAMS \
-classpath "$local_classpath" \
com.install4j.runtime.launcher.UnixLauncher launch 0 0 0 com.install4j.runtime.installer.Installer  "$@"