"compressed subject database does not exist" error with custom library

[jebrosen]

I met the same problem when I used the custom library (about 4.3Gb). RepeatMasker version 4.1.2-p1 Search Engine: NCBI/RMBLAST [ 2.10.0+ ] NCBIBlastSearchEngine::search: Error...compressed subject database (/public1/BGI/Project/F21FTSECKF2595/PUTjinwD/02.assembly/02.hic/02.contain_hic/cc/RM_23789.FriNov120937482021/merge.TEsorter.non_similar_repeat.for_lib.fa) does not exist! Is it the library too big? It's going on while I split the library into 2 files (about 2Gb) It's not suitable to mask repeat using two splited library.

Originally posted by @answer19831020 in https://github.com/rmhubley/RepeatMasker/issues/8#issuecomment-966752900

[jebrosen]

@answer19831020 In this situation, there should be a file in the temporary directory for the run (RM_...<date>/) named makeblastdb.log. Does the makeblastdb.log file exist and have further information about the error?

[Shairah]

Hi there. I am having the same error. Here's further information about the error from makeblastdb.log

Building a new DB, current time: 08/09/2022 16:42:37 New DB name: /nobackup/fbssabd/RMask/RepeatMasker/RM_39078.TueAug91642352022/sibirica-combine$ New DB title: sibirica-combined.fa Sequence type: Nucleotide Keep MBits: T Maximum file size: 1000000000B

No volumes were created.

Error: mdb_env_open: Cannot allocate memory

I was running this interactively on the HPC at my institution. I will try to re-run the command via the script file and submit it to the cluster. Do you have any suggestion on how much resources should be allocated for this run?