Error after Phase 2

[Laia Leria Florensa]

Dear Brian,

I have found this error at the end of Phase 2 of the assembly and I have no idea how to solve it: 

succeeded(491450)   99.9998% completed.    

We are sorry, commands in file: [failed_butterfly_commands.3786165.txt] failed.  :-(

Error encountered::  <!----
CMD: /usr/local/bin/trinity-plugins/BIN/ParaFly -c /home/lleria/drago-hpc-containers/trinity/trinity_out_dir_crambe2023_5/read_partitions/Fb_0/CBin_32/c3221.trinity.reads.fa.out/chrysalis/butterfly_commands -shuffle -CPU 1 -failed_cmds failed_butterfly_commands.3786165.txt  2>tmp.3786165.1702016511.stderr

Errmsg:
Exception in thread "main" java.lang.OutOfMemoryError: Java heap space
at java.base/java.util.Arrays.copyOfRange(Arrays.java:4030)
at java.base/java.lang.StringLatin1.newString(StringLatin1.java:715)
at java.base/java.lang.String.substring(String.java:1846)
at SeqVertex.getNameKmerAdj(SeqVertex.java:459)
at SeqVertex.getShortSeq(SeqVertex.java:430)
at SeqVertex.getShortSeqWID(SeqVertex.java:478)
at SeqVertex.toString(SeqVertex.java:260)
at java.base/java.lang.String.valueOf(String.java:2951)
at java.base/java.lang.StringBuilder.append(StringBuilder.java:172)
at TransAssembly_allProbPaths.compactLinearPaths(TransAssembly_allProbPaths.java:14560)
at TransAssembly_allProbPaths.main(TransAssembly_allProbPaths.java:827)
warning, cmd: java -Xmx10G -Xms1G -Xss1G   -XX:ParallelGCThreads=2  -jar /usr/local/bin/Butterfly/Butterfly.jar -N 100000 -L 200 -F 500 -C /home/lleria/drago-hpc-containers/trinity/trinity_out_dir_crambe2023_5/read_partitions/Fb_0/CBin_32/c3221.trinity.reads.fa.out/chrysalis/Component_bins/Cbin0/c0.graph  --path_reinforcement_distance=25  --NO_EM_REDUCE  failed with ret: 256, going to retry.
Exception in thread "main" java.lang.OutOfMemoryError: Java heap space
at java.base/java.util.Arrays.copyOfRange(Arrays.java:4030)
at java.base/java.lang.StringLatin1.newString(StringLatin1.java:715)
at java.base/java.lang.String.substring(String.java:1846)
at SeqVertex.getNameKmerAdj(SeqVertex.java:459)
at SeqVertex.getShortSeq(SeqVertex.java:430)
at SeqVertex.getShortSeqWID(SeqVertex.java:478)
at SeqVertex.toString(SeqVertex.java:260)
at java.base/java.lang.String.valueOf(String.java:2951)
at java.base/java.lang.StringBuilder.append(StringBuilder.java:172)
at TransAssembly_allProbPaths.compactLinearPaths(TransAssembly_allProbPaths.java:14571)
at TransAssembly_allProbPaths.main(TransAssembly_allProbPaths.java:827)

And this keeps repeating until this message:

--->

Trinity run failed. Must investigate error above.
warning, cmd: /usr/local/bin/util/support_scripts/../../Trinity --single "/home/lleria/drago-hpc-containers/trinity/trinity_out_dir_crambe2023_5/read_partitions/Fb_0/CBin_32/c3221.trinity.reads.fa" --output "/home/lleria/drago-hpc-containers/trinity/trinity_out_dir_crambe2023_5/read_partitions/Fb_0/CBin_32/c3221.trinity.reads.fa.out" --CPU 1 --max_memory 1G --run_as_paired --seqType fa --trinity_complete --full_cleanup --min_kmer_cov 2 --no_salmon   failed with ret: 65280, going to retry.

succeeded(491450), failed(1)   100% completed.    

We are sorry, commands in file: [FailedCommands] failed.  :-(

Error, cmd: /usr/local/bin/trinity-plugins/BIN/ParaFly -c recursive_trinity.cmds -CPU 50 -v -shuffle  died with ret 256 at /usr/local/bin/Trinity line 2919.
main::process_cmd("/usr/local/bin/trinity-plugins/BIN/ParaFly -c recursive_trini"...) called at /usr/local/bin/Trinity line 3653
main::run_partitioned_cmds("recursive_trinity.cmds") called at /usr/local/bin/Trinity line 2528
main::run_recursive_trinity("/home/lleria/drago-hpc-containers/trinity/./trinity_out_dir_c"...) called at /usr/local/bin/Trinity line 2271
main::run_chrysalis("/home/lleria/drago-hpc-containers/trinity/trinity_out_dir_cra"..., "/home/lleria/drago-hpc-containers/trinity/trinity_out_dir_cra"..., 200, 500, undef, "/home/lleria/drago-hpc-containers/trinity/trinity_out_dir_cra"..., "/home/lleria/drago-hpc-containers/trinity/trinity_out_dir_cra"...) called at /usr/local/bin/Trinity line 1895
main::run_Trinity() called at /usr/local/bin/Trinity line 1500
eval {...} called at /usr/local/bin/Trinity line 1499

Trinity run failed. Must investigate error above.

Could you help me solving it?

Thank you so much,

Laia