bwa index can not build

[xiangqing111]

Description of the bug

Command used and terminal output

Workflow execution completed unsuccessfully!
The exit status of the task that caused the workflow execution to fail was: 1.

The full error message was:

Error executing process > 'NFCORE_SAREK:SAREK:PREPARE_GENOME:BWAMEM2_INDEX (wheat_AK58v4MP.genome_part.fa)'

Caused by:
  Process `NFCORE_SAREK:SAREK:PREPARE_GENOME:BWAMEM2_INDEX (wheat_AK58v4MP.genome_part.fa)` terminated with an error exit status (1)

Command executed:

  mkdir bwamem2
  bwa-mem2 \
      index \
       \
      wheat_AK58v4MP.genome_part.fa -p bwamem2/wheat_AK58v4MP.genome_part.fa
  
  cat <<-END_VERSIONS > versions.yml
  "NFCORE_SAREK:SAREK:PREPARE_GENOME:BWAMEM2_INDEX":
      bwamem2: $(echo $(bwa-mem2 version 2>&1) | sed 's/.* //')
  END_VERSIONS

Command exit status:
  1

Command output:
  (empty)

Command error:
  WARNING: Skipping mount /var/apptainer/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container
  Looking to launch executable "/usr/local/bin/bwa-mem2.avx512bw", simd = .avx512bw
  Launching executable "/usr/local/bin/bwa-mem2.avx512bw"
  [bwa_index] Pack FASTA... 326.78 sec
  * Entering FMI_search
  init ticks = 2314687594798
  ref seq len = 29505445308
  binary seq ticks = 1439253015648
  Allocation of 219.83 GB for suffix_array failed.
  Current Allocation = 247.31 GB

Work dir:
  /cluster/home/fanrong/projects/AK58/input/work/15/67742430e3c44550423e1622438e63

Tip: view the complete command output by changing to the process work dir and entering the command `cat .command.out

Relevant files

XXX@node6 67742430e3c44550423e1622438e63]$ cat .command.sh
#!/bin/bash -euo pipefail
mkdir bwamem2
bwa-mem2
index

wheat_AK58v4MP.genome_part.fa -p bwamem2/wheat_AK58v4MP.genome_part.fa

cat <<-END_VERSIONS > versions.yml
"NFCORE_SAREK:SAREK:PREPARE_GENOME:BWAMEM2_INDEX":
bwamem2: $(echo $(bwa-mem2 version 2>&1) | sed 's/.* //')
END_VERSIONS

System information

No response