Arch Linux User Repository

Sad, that orphaned package. Currently (cmaptools v6.04-1) impossible to install. Installation process asked, which Java to use. Used default choice (1):

1) jdk-openjdk 2) jdk11-openjdk 3) jdk17-openjdk 4) jdk21-openjdk 5) jdk8-openjdk 

Enter a number (default=1):

Current error message:

==> Starting package()...
Preparing to install
Extracting the JRE from the installer archive...
Unpacking the JRE...
Extracting the installation resources from the installer archive...
Configuring the installer for this system's environment...

Launching installer...

Invocation of this Java Application has caused an InvocationTargetException. This application will now exit. (LAX)

Stack Trace:
java.lang.NullPointerException
    at com.zerog.ia.installer.LifeCycleManager.dd(Unknown Source)
    at com.zerog.ia.installer.LifeCycleManager.consoleInstallMain(Unknown Source)
    at com.zerog.ia.installer.LifeCycleManager.executeApplication(Unknown Source)
    at com.zerog.ia.installer.Main.main(Unknown Source)
    at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
    at sun.reflect.NativeMethodAccessorImpl.invoke(Unknown Source)
    at sun.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
    at java.lang.reflect.Method.invoke(Unknown Source)
    at com.zerog.lax.LAX.launch(Unknown Source)
    at com.zerog.lax.LAX.main(Unknown Source)
rm: '/home/user/.cache/yay/cmaptools/pkg/cmaptools/opt/cmaptools/Uninstall CmapTools' cannot delete: No such file or directory
==> ERROR: A failure occurred in package().
    Aborting...
 -> error making: cmaptools-exit status 4
checking dependencies...

I tried to report but it seems like impossible, as Antonio Rojas (arojas) claims it is not the_silver_searcher issue, but exactly that package gave the error during installation. He does not look into report and just closes issues. Also he says, like it is MY issue, but I just mentioned, that cannot install due fatal bug. It seems like cmaptools cannot be installed since March, 2020 already, today is already the end of November, 2021... Although CmapTools is a lot used in academic world and very much needed. Well, we need to go manual. I don't have these skills to package here anything.

Impossible to install v6.0.4-1, sounds like the_silver_searcher has bug - https://bugs.archlinux.org/task/72864 Tried with JDK7 and JDK8. Shall I download and install manually? I mean directly from CmapTools website.

It may be necessary to apply the following patch to /opt/cmaptools/bin/CmapTools to prevent it from crashing on startup.

--- /opt/cmaptools/bin/CmapTools.old    2020-10-08 18:26:12.480789587 -0300
+++ /opt/cmaptools/bin/CmapTools    2020-10-08 18:26:46.624123420 -0300
@@ -2562,16 +2562,6 @@
 # Checking Java Version and adding Java-9 module illegal access switch only in case of Java-9 and above.
 # Chances are this options may be removed in the next major release.

-extractVMVer=`echo $inspectedVMVersion | cut -c1-2`
-if [ "$extractVMVer" != "1." ] ; then
-   debugOut "Java 9 or higher version detected. Adding module access switch."
-   
-   isJava9AndAbove="TRUE"
-   
-   java9Options="--add-opens java.base/jdk.internal.loader=ALL-UNNAMED"
-   options="$java9Options $options"
-fi
-
 # Optional printout of all variable values for debugging purposes

 debugOut ""

For some reason, the installer runs when called via the terminal but not when called by makepkg.

Make the following changes to PKGBUILD:

    chmod +x Linux64CmapTools_$pkgver\_$_pkgdate.bin
    echo ./Linux64CmapTools_$pkgver\_$_pkgdate.bin \
            -f $PWD/installer.properties \
            -DUSER_INSTALL_DIR=$pkgdir/opt/cmaptools \
            -DUSER_SHORTCUTS=$pkgdir/usr/share/applications \
    || true
    tar xf ../cmaptools.tar -C ../pkg

    # Copy bash executable to path
    install -Dm755 $pkgdir/../../cmaptools $pkgdir/usr/bin/cmaptools

And run these commands to make and install:

$ ./Linux64CmapTools_v6.04_09-24-19.bin -f $HOME/.cache/yay/cmaptools/src/installer.properties -DUSER_INSTALL_DIR=$HOME/.cache/yay/cmaptools/pkg/cmaptools/opt/cmaptools -DUSER_SHORTCUTS=$HOME/.cache/yay/cmaptools/pkg/cmaptools/usr/share/applications
$ cd pkg
$ tar cvf ../cmaptools.tar cmaptools
$ cd ..
$ makepkg -R -e

Until this is fixed in AUR, I have downloaded the bin file manually from https://cmap.ihmc.us/cmaptools/cmaptools-download/ , and installed CMapTools.

The download bundles JRE 1.7.

Attempting to install, with either jav8-jre/jre , java8-openjdk or jav7-openjdk-jre results in an error:

-- begin paste -- java.lang.NullPointerException at com.zerog.ia.installer.LifeCycleManager.dd(Unknown Source) at com.zerog.ia.installer.LifeCycleManager.consoleInstallMain(Unknown Source) at com.zerog.ia.installer.LifeCycleManager.executeApplication(Unknown Source) at com.zerog.ia.installer.Main.main(Unknown Source) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source) at java.lang.reflect.Method.invoke(Unknown Source) at com.zerog.lax.LAX.launch(Unknown Source) at com.zerog.lax.LAX.main(Unknown Source)

-- end paste --

I've updated the PKGBUILD but now I'm getting a java.lang.NullPointerException after installing.

Since I'm not using this software any longer, maybe somebody else wants to adopt it.

Hi @daviding,

I'm not sure. It works here normally but I'm running vanilla Archlinux.

The installation seems to hang. The dependency on java-8-openjdk succeeded. What's the next step in diagnosing the problem?

$ inxi -S System: Kernel: 4.20.17-1-MANJARO x86_64 bits: 64 Desktop: KDE Plasma 5.15.3 Distro: Manjaro Linux

pkgname=cmaptools pkgver=v6.03.01 _pkgdate=02-07-19

Preparing... Cloning cmaptools build files... Checking cmaptools dependencies... Building cmaptools... ==> Making package: cmaptools v6.03.01-1 (Sat 13 Apr 2019 01:34:41 PM EDT) ==> Checking runtime dependencies... ==> Checking buildtime dependencies... ==> Retrieving sources... -> Found Linux64CmapTools_v6.03.01_02-07-19.bin -> Found installer.properties -> Found icon.png -> Found cmaptools.desktop -> Found cmaptools ==> Validating source files with md5sums... Linux64CmapTools_v6.03.01_02-07-19.bin ... Passed installer.properties ... Passed icon.png ... Passed cmaptools.desktop ... Passed cmaptools ... Passed ==> Removing existing $srcdir/ directory... ==> Extracting sources... ==> Removing existing $pkgdir/ directory... ==> Entering fakeroot environment... ==> Starting package()... Preparing to install Extracting the JRE from the installer archive... Unpacking the JRE... Extracting the installation resources from the installer archive... Configuring the installer for this system's environment...

Launching installer...