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balamurugan Sadaiappan avatar Ubuntu

Ubuntu 20.04 Crash

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balamurugan Sadaiappan

I am doing Kneaddata and humann3 for identifying the functional gene for shot-gun metagenome using commands:

kneaddata --input AST2R1.fastq --input AST2R1.fastq -db $/home/plankton/Kneadata_DIR --output /home/plankton/Metagenomics_AST_Thatha/CG_DN_935 --trimmomatic /home/plankton/anaconda3/share/trimmomatic-0.39-2 --thread 4

humann --input /home/plankton/Metagenomics_AST_Thatha/CG_DN_935/AST2.1/AST2R1_kneaddata.fastq --output /home/plankton/Metagenomics_AST_Thatha/CG_DN_935/AST2.1/AST2_humann --nucleotide-database /home/plankton/INSTALL_LOCATION --thread 8

In both the cases the system took long time and hanged. Also, Firefox is crashing.

System config Ubuntu 20.04.3 LTS

df -h
Filesystem Size Used Avail Use% Mounted on udev 
32G 0 32G 0% /dev tmpfs 6.3G 2.0M 6.3G 1% 
/run /dev/sdb3 457G 283G 152G 66% 
/ tmpfs 32G 112K 32G 1% 
/dev/shm tmpfs 5.0M 4.0K 5.0M 1% 
/run/lock tmpfs 32G 0 32G 0% 
/sys/fs/cgroup

Crash report

ls -al /var/crash
total 53288
drwxrwsrwt  2 root     whoopsie     4096 Jan 20 16:48 .
drwxr-xr-x 14 root     root         4096 Aug 19 16:17 ..
-rw-r-----  1 plankton whoopsie 33984941 Jan 19 17:51 _usr_bin_gnome-shell.1000.crash
-rw-rw-r--  1 plankton whoopsie        0 Jan 18 15:47 _usr_bin_gnome-shell.1000.upload
-rw-------  1 whoopsie whoopsie       37 Jan 18 15:47 _usr_bin_gnome-shell.1000.uploaded
-rw-r-----  1 plankton whoopsie 10929583 Jan 15 21:59 _usr_bin_nautilus.1000.crash
-rw-rw-r--  1 plankton whoopsie        0 Jan 15 21:59 _usr_bin_nautilus.1000.upload
-rw-------  1 whoopsie whoopsie       37 Jan 15 21:59 _usr_bin_nautilus.1000.uploaded
-rw-r-----  1 plankton whoopsie  9621952 Jan 20 16:48 _usr_lib_xorg_Xorg.1000.crash
-rw-r--r--  1 plankton whoopsie        0 Jan 20 16:48 _usr_lib_xorg_Xorg.1000.upload
-rw-------  1 whoopsie whoopsie       37 Jan 20 16:48 _usr_lib_xorg_Xorg.1000.uploaded

Please provide solution Thank you

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Artur Meinild avatar
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Artur Meinild
You should probably include the relevant lines of the crash reports, if anyone should get a clue to help out.
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