Nextflow workflow report

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_CHIPSEQ:CHIPSEQ:MULTIQC'

Caused by:
  Process `NFCORE_CHIPSEQ:CHIPSEQ:MULTIQC` terminated with an error exit status (1)


Command executed:

  multiqc \
      -f \
       \
       \
      .
  
  cat <<-END_VERSIONS > versions.yml
  "NFCORE_CHIPSEQ:CHIPSEQ:MULTIQC":
      multiqc: $( multiqc --version | sed -e "s/multiqc, version //g" )
  END_VERSIONS

Command exit status:
  1

Command output:
  (empty)

Command error:
                 ^^^^^^^^^^^^^^^^^^^^^^^^
    File "/usr/local/lib/python3.11/site-packages/kaleido/scopes/base.py", line 293, in _perform_transform
      self._ensure_kaleido()
    File "/usr/local/lib/python3.11/site-packages/kaleido/scopes/base.py", line 198, in _ensure_kaleido
      raise ValueError(message)
  ValueError: Failed to start Kaleido subprocess. Error stream:
  
  [0722/090036.897031:WARNING:resource_bundle.cc(431)] locale_file_path.empty() for locale 
  [0722/090036.968432:WARNING:resource_bundle.cc(431)] locale_file_path.empty() for locale 
  [0722/090036.968448:WARNING:resource_bundle.cc(431)] locale_file_path.empty() for locale 
  [0722/090037.048154:WARNING:discardable_shared_memory_manager.cc(194)] Less than 64MB of free space in temporary directory for shared memory files: 0
  [0722/090037.362568:ERROR:platform_shared_memory_region_posix.cc(250)] Creating shared memory in /abyss/gibcus/gibcus_mnt_genomics/basespace/tmp/.org.chromium.Chromium.3359qC failed: No such file or directory (2)
  [0722/090037.362620:ERROR:platform_shared_memory_region_posix.cc(253)] Unable to access(W_OK|X_OK) /abyss/gibcus/gibcus_mnt_genomics/basespace/tmp: No such file or directory (2)
  Received signal 6
  #0 0x55e4c599ad79 base::debug::CollectStackTrace()
  #1 0x55e4c5918633 base::debug::StackTrace::StackTrace()
  #2 0x55e4c599a95b base::debug::(anonymous namespace)::StackDumpSignalHandler()
  #3 0x7f950c703050 (/usr/lib/x86_64-linux-gnu/libc.so.6+0x3c04f)
  #4 0x7f950c751e2c (/usr/lib/x86_64-linux-gnu/libc.so.6+0x8ae2b)
  #5 0x7f950c702fb2 gsignal
  #6 0x7f950c6ed472 abort
  #7 0x55e4c594630a base::internal::OnNoMemoryInternal()
  #8 0x55e4c5946329 base::(anonymous namespace)::OnNoMemory()
  #9 0x55e4c5946319 base::TerminateBecauseOutOfMemory()
  #10 0x55e4c59300ab base::FieldTrialList::InstantiateFieldTrialAllocatorIfNeeded()
  #11 0x55e4c5930239 base::FieldTrialList::CopyFieldTrialStateToFlags()
  #12 0x55e4c448bf82 content::GpuProcessHost::LaunchGpuProcess()
  #13 0x55e4c448a910 content::GpuProcessHost::Init()
  #14 0x55e4c448a6c2 content::GpuProcessHost::Get()
  #15 0x55e4c48a7b6e base::internal::Invoker<>::RunOnce()
  #16 0x55e4c595e306 base::TaskAnnotator::RunTask()
  #17 0x55e4c596fcf6 base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::DoWorkImpl()
  #18 0x55e4c596f9ea base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::DoWork()
  #19 0x55e4c59bc899 base::MessagePumpLibevent::Run()
  #20 0x55e4c597059b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run()
  #21 0x55e4c59499bd base::RunLoop::Run()
  #22 0x55e4c4331f18 content::BrowserProcessSubThread::IOThreadRun()
  #23 0x55e4c5988874 base::Thread::ThreadMain()
  #24 0x55e4c59aacaa base::(anonymous namespace)::ThreadFunc()
  #25 0x7f950c750134 (/usr/lib/x86_64-linux-gnu/libc.so.6+0x89133)
  #26 0x7f950c7d07dc (/usr/lib/x86_64-linux-gnu/libc.so.6+0x1097db)
    r8: 0000000000000000  r9: 000024df81c760b1 r10: 0000000000000008 r11: 0000000000000246
   r12: 0000000000000006 r13: 000055e4c22beeb0 r14: 000024df81bb3cc0 r15: 000024df81c70300
    di: 000000000000023a  si: 0000000000000241  bp: 00007f950a35e6c0  bx: 0000000000000241
    dx: 0000000000000006  ax: 0000000000000000  cx: 00007f950c751e2c  sp: 00007f950a35d070
    ip: 00007f950c751e2c efl: 0000000000000246 cgf: 002b000000000033 erf: 0000000000000004
   trp: 000000000000000e msk: 0000000000000000 cr2: 0000000000000008
  [end of stack trace]
  Calling _exit(1). Core file will not be generated.

Work dir:
  /abyss/gibcus/gibcus_mnt_genomics/basespace/LY_Chip-seq/work/a4/04f736a55bc9aa22d153f3ceb318de

Container:
  /abyss/gibcus/gibcus_mnt_genomics/basespace/LY_Chip-seq/work/singularity/depot.galaxyproject.org-singularity-multiqc-1.23--pyhdfd78af_0.img

Tip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run`