I’m trying to meganize a daa file via the command line. But I have a problem with daa-meganizer. Here is the error message I get:
xvfb-run --auto-servernum --server-num=1 megan/tools/daa-meganizer -mdb /mnt/f/megan-map-Feb2022.db -i /mnt/f/RNA_1_W.daa
Picked up _JAVA_OPTIONS: -Xmx115G
Version MEGAN Community Edition (version 6.24.12, built 4 Jan 2023)
Author(s) Daniel H. Huson
Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY.
Java version: 18.0.2.1
Functional classifications to use: EC, EGGNOG, GTDB, INTERPRO2GO, SEED
Loading ncbi.map: 2,396,736
Loading ncbi.tre: 2,396,740
Loading ec.map: 8,200
Loading ec.tre: 8,204
Loading eggnog.map: 30,875
Loading eggnog.tre: 30,986
Loading gtdb.map: 240,103
Loading gtdb.tre: 240,107
Loading interpro2go.map: 14,242
Loading interpro2go.tre: 28,907
Loading seed.map: 961
Loading seed.tre: 962
Meganizing: /mnt/f/RNA_1_W.daa
Meganizing init
Annotating DAA file using FAST mode (accession database and first accession per line)
Annotating references
10% 20% 30% 40% 50% 60% 70% 80% 90% #
# A fatal error has been detected by the Java Runtime Environment:
#
# SIGSEGV (0xb) at pc=0x00007fd67977b959, pid=896, tid=969
#
# JRE version: OpenJDK Runtime Environment (18.0.2.1+1) (build 18.0.2.1+1)
# Java VM: OpenJDK 64-Bit Server VM (18.0.2.1+1, mixed mode, tiered, compressed class ptrs, g1 gc, linux-amd64)
# Problematic frame:
# C [libc.so.6+0x18b959][thread 975 also had an error]
[thread 970 also had an error]
[thread 971 also had an error]
[timeout occurred during error reporting in step "printing problematic frame"] after 30 s.
# Core dump will be written. Default location: core.896 (may not exist)
#
# An error report file with more information is saved as:
# /home/hyojoeng/hs_err_pid896.log
[thread 974 also had an error][thread 972 also had an error]
[thread 973 also had an error]# [ timer expired, abort... ]
megan/tools/daa-meganizer: line 44: 896 Aborted (core dumped) $java $java_flags --module-path=$modulepath --add-modules=megan megan.tools.DAAMeganizer $options
Did I do something wrong ?
Thanks in advance