Parallels Tools in RHEL causes desktop issues.

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BobR2

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After installing Parallels tools in RHEL 7.6, I'm having issues with GDM. Applications appear in front of the desktop, but behind the icons. When I first log in, I have a blank screen with a mouse pointer for a few seconds then the icons appear, the screen goes blank and then I see the desktop rise up as usual. Abrt-Cli is reporting gnome-shell failed. I am also unable to drag applications around by their title bars, however, I can still drag them around by the blank space in the menu bar. Seems like coherence might have something to do with it. I have included a screen shot of the issue I am seeing as well as the basic abrt-cli output.
Also note the only way to make an inactive application active is to use Alt+Tab. I do not know if Fedora or CentOS are affected by this or not.Screen Shot 2018-11-26 at 4.27.04 PM.png

It is also worth noting that I have isolate linux from Mac enabled.
 
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I have a bash script that works under Ubuntu 14.04 that uses parallel-20141122
I am trying to update to ubuntu 18.04. First I tried it as it was with the old version of parallel but got this:
/mnt/disk4/labs/salipante/waalkes/code/functions/abyss_assemble/abyss_assemble.sh: line 33: 125048 Segmentation fault (core dumped) $PARALLEL_ROOT/parallel -v -j $CORES $ABYSS_ROOT/abyss-pe j=1 k={} name=${PFX}_{} in=\"$R1 $R2\" ::: 21 35 48 61 74 87 100 113 126 139 149
So I tried to update to parallel-20190122 but I get a highly similar error:
/mnt/disk4/labs/salipante/waalkes/code/functions/abyss_assemble/abyss_assemble.sh: line 34: 127221 Segmentation fault (core dumped) $PARALLEL_ROOT/parallel -v -j $CORES $ABYSS_ROOT/abyss-pe j=1 k={} name=${PFX}_{} in=\"$R1 $R2\" ::: 21 35 48 61 74 87 100 113 126 139 149
I echoed the command I am calling from the script on 14.04 and 18.04 and these are the same:
/mnt/disk4/labs/salipante/programs/parallel-20190122/parallel -v -j 20 /mnt/disk4/labs/salipante/programs/abyss-2.0.2_install/bin/abyss-pe j=1 k={} name=14-210-000722-S1_{} in="/home/local/AMC/waalkes/dan/14-210-000722-S1.Analysis/14-210-000722-S1.R1.trimmed.fastq.gz /home/local/AMC/waalkes/dan/14-210-000722-S1.Analysis/14-210-000722-S1.R2.trimmed.fastq.gz" ::: 21 35 48 61 74 87 100 113 126 139 149
Here is the bash script line the calls it:
$PARALLEL_ROOT/parallel -v -j $CORES $ABYSS_ROOT/abyss-pe j=1 k={} name=${PFX}_{} in=\"$R1 $R2\" ::: 21 35 48 61 74 87 100 113 126 139 149
This leads me to believe that the problem is probably in how parameters are passed in 18.04 vs 14.04. Any idea why with the updated parallel I still get the core dump?
Thanks
 
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