Crash parsing input file (works in CLI)

[nermze]

Hi,

Im having an issue parsing a file containing 1000 WGS sequenes, aprox 1.3 GB in total size. I have previously run the program with no issues with the same amount of sequences, albiet lower total size. The CLI interface handles the file just fine, so it seems like an issue with GUI. Any ideas how to troubleshoot this?

System:
raxML 2.0.13
Intel Xeon 28 core cpu
128 GB RAM
1 TB SSD

(base) bioinf@bioinf:~/Desktop$ coredumpctl info 520478
           PID: 520478 (raxmlgui)
           UID: 1000 (bioinf)
           GID: 1000 (bioinf)
        Signal: 5 (TRAP)
     Timestamp: Tue 2024-10-22 09:11:01 CEST (22min ago)
  Command Line: /tmp/.mount_raxmlGp5JwCB/raxmlgui
    Executable: /tmp/.mount_raxmlGp5JwCB/raxmlgui
 Control Group: /user.slice/user-1000.slice/[email protected]/app.slice/app-org.gnome.Terminal.slice/vte-spawn-0a0450ca-8a1a-482e-8ec8-f04f161aa601.scope
          Unit: [email protected]
     User Unit: vte-spawn-0a0450ca-8a1a-482e-8ec8-f04f161aa601.scope
         Slice: user-1000.slice
     Owner UID: 1000 (bioinf)
       Boot ID: 0ecebfc950024e359cfc11ea03d7e8b8
    Machine ID: 9db0d415c2a948e1b2c17e8c6af196a7
      Hostname: bioinf
       Storage: /var/lib/systemd/coredump/core.raxmlgui.1000.0ecebfc950024e359cfc11ea03d7e8b8.520478.1729581061000000.zst (present)
  Size on Disk: 382.5M
       Message: Process 520478 (raxmlgui) of user 1000 dumped core.
                
                Module libstdc++.so.6 from deb gcc-14-14.2.0-4ubuntu2~24.04.amd64
                Module libudev.so.1 from deb systemd-255.4-1ubuntu8.4.amd64
                Module libzstd.so.1 from deb libzstd-1.5.5+dfsg2-2build1.1.amd64
                Module libsystemd.so.0 from deb systemd-255.4-1ubuntu8.4.amd64
                Module libgcc_s.so.1 from deb gcc-14-14.2.0-4ubuntu2~24.04.amd64
                Stack trace of thread 520478:
                #0  0x00005fdd625db0bf n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x58de0bf)
                #1  0x00005fdd625db0d9 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x58de0d9)
                #2  0x00005fdd625db0f6 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x58de0f6)
                #3  0x00005fdd625dd7f0 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x58e07f0)
                #4  0x00005fdd625dcf97 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x58dff97)
                #5  0x00005fdd624deb5b n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x57e1b5b)
                #6  0x00005fdd624de1cf n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x57e11cf)
                #7  0x00005fdd5f1fa38b n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x24fd38b)
                #8  0x00005fdd5f1f9fbd n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x24fcfbd)
                #9  0x00005fdd607c7980 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3aca980)
                #10 0x00005fdd607c8982 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3acb982)
                #11 0x00005fdd607c7eff n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3acaeff)
                #12 0x00005fdd607c9c61 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3accc61)
                #13 0x00005fdd607c8574 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3acb574)
                #14 0x00005fdd607c9064 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3acc064)
                #15 0x00005fdd607c84e2 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3acb4e2)
                #16 0x00005fdd607c9c61 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3accc61)
                #17 0x00005fdd607c8574 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3acb574)
                #18 0x00005fdd607c9c61 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3accc61)
                #19 0x00005fdd607c8574 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3acb574)
                #20 0x00005fdd607c9064 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3acc064)
                #21 0x00005fdd607c84e2 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3acb4e2)
                #22 0x00005fdd60329350 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x362c350)
                #23 0x00005fdd5f1f995d n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x24fc95d)
                #24 0x00005fdd5f1f9867 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x24fc867)
                #25 0x00005fdd5f13ce73 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x243fe73)
                #26 0x00005fdd5f13f90b n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x244290b)
                #27 0x00005fdd5f13f728 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x2442728)
                #28 0x00005fdd5ec8e342 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x1f91342)
                #29 0x00005fdd5ec8cae7 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x1f8fae7)
                #30 0x00005fdd5ec8cae7 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x1f8fae7)
                #31 0x00005fdd5ec8cae7 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x1f8fae7)
                #32 0x00005fdd5ec8cae7 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x1f8fae7)
                #33 0x00005fdd5ecc9cc2 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x1fcccc2)
                #34 0x00005fdd5ed8feb0 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x2092eb0)
                #35 0x00005fdd5ecb79e7 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x1fba9e7)
                #36 0x00005fdd5ec8a907 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x1f8d907)
                #37 0x00005fdd6043bbc9 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x373ebc9)
                #38 0x00005fdd6043ca57 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x373fa57)
                #39 0x00005fdd6043cc06 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x373fc06)
                #40 0x00005fdd6046ca40 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x376fa40)
                #41 0x00005fdd5ec8e5c9 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x1f915c9)
                #42 0x00005fddbeffc87e n/a (n/a + 0x0)
                #43 0x00005fdd5ec8a9dc n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x1f8d9dc)
                #44 0x00005fdd5ec8a707 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x1f8d707)
                #45 0x00005fdd6043bcb6 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x373ecb6)
                #46 0x00005fdd6043b998 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x373e998)
                #47 0x00005fdd60335759 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x3638759)
                #48 0x00005fdd662d5313 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x95d8313)
                #49 0x00005fdd662d54b2 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x95d84b2)
                #50 0x00005fdd662eae19 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x95ede19)
                #51 0x00005fdd66398e6f n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x969be6f)
                #52 0x00005fdd6639a219 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x969d219)
                #53 0x00005fdd6638ae22 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x968de22)
                #54 0x00005fdd5f06d906 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x2370906)
                #55 0x00005fdd5f071096 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x2374096)
                #56 0x00005fdd5f07fcae n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x2382cae)
                #57 0x00005fdd5f071538 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x2374538)
                #58 0x00005fdd5f1f7d91 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x24fad91)
                #59 0x00005fdd6248765d n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x578a65d)
                #60 0x00005fdd624a3bc4 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x57a6bc4)
                #61 0x00005fdd624a33d9 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x57a63d9)
                #62 0x00005fdd624a4105 n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x57a7105)
                #63 0x00005fdd6250412b n/a (/tmp/.mount_raxmlGp5JwCB/raxmlgui + 0x580712b)