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:
  
  [0623/192724.369406:WARNING:resource_bundle.cc(431)] locale_file_path.empty() for locale 
  [0623/192724.429563:WARNING:resource_bundle.cc(431)] locale_file_path.empty() for locale 
  [0623/192724.430511:WARNING:resource_bundle.cc(431)] locale_file_path.empty() for locale 
  [0623/192724.431322:WARNING:discardable_shared_memory_manager.cc(194)] Less than 64MB of free space in temporary directory for shared memory files: 0
  [0623/192724.568925:ERROR:platform_shared_memory_region_posix.cc(250)] Creating shared memory in /tmpdir/job/2556829.undefined/.org.chromium.Chromium.rT1Iow failed: No such file or directory (2)
  [0623/192724.568983:ERROR:platform_shared_memory_region_posix.cc(253)] Unable to access(W_OK|X_OK) /tmpdir/job/2556829.undefined: No such file or directory (2)
  Received signal 6
  #0 0x563c11b99d79 base::debug::CollectStackTrace()
  #1 0x563c11b17633 base::debug::StackTrace::StackTrace()
  #2 0x563c11b9995b base::debug::(anonymous namespace)::StackDumpSignalHandler()
  #3 0x2b2a392e9050 (/usr/lib/x86_64-linux-gnu/libc.so.6+0x3c04f)
  #4 0x2b2a39337e2c (/usr/lib/x86_64-linux-gnu/libc.so.6+0x8ae2b)
  #5 0x2b2a392e8fb2 gsignal
  #6 0x2b2a392d3472 abort
  #7 0x563c11b4530a base::internal::OnNoMemoryInternal()
  #8 0x563c11b45329 base::(anonymous namespace)::OnNoMemory()
  #9 0x563c11b45319 base::TerminateBecauseOutOfMemory()
  #10 0x563c11b2f0ab base::FieldTrialList::InstantiateFieldTrialAllocatorIfNeeded()
  #11 0x563c11b2f239 base::FieldTrialList::CopyFieldTrialStateToFlags()
  #12 0x563c1068af82 content::GpuProcessHost::LaunchGpuProcess()
  #13 0x563c10689910 content::GpuProcessHost::Init()
  #14 0x563c106896c2 content::GpuProcessHost::Get()
  #15 0x563c10aa6b6e base::internal::Invoker<>::RunOnce()
  #16 0x563c11b5d306 base::TaskAnnotator::RunTask()
  #17 0x563c11b6ecf6 base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::DoWorkImpl()
  #18 0x563c11b6e9ea base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::DoWork()
  #19 0x563c11bbb899 base::MessagePumpLibevent::Run()
  #20 0x563c11b6f59b base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run()
  #21 0x563c11b489bd base::RunLoop::Run()
  #22 0x563c10530f18 content::BrowserProcessSubThread::IOThreadRun()
  #23 0x563c11b87874 base::Thread::ThreadMain()
  #24 0x563c11ba9caa base::(anonymous namespace)::ThreadFunc()
  #25 0x2b2a39336134 (/usr/lib/x86_64-linux-gnu/libc.so.6+0x89133)
  #26 0x2b2a393b5a40 __clone
    r8: 0000000000000000  r9: 000010764493c51f r10: 0000000000000008 r11: 0000000000000246
   r12: 0000000000000006 r13: 0000563c0e4bdeb0 r14: 000010764486bcc0 r15: 000010764494da00
    di: 0000000000000166  si: 00000000000001ea  bp: 00002b2a39ff56c0  bx: 00000000000001ea
    dx: 0000000000000006  ax: 0000000000000000  cx: ffffffffffffffff  sp: 00002b2a39ff4070
    ip: 00002b2a39337e2c efl: 0000000000000246 cgf: 0000000000000033 erf: 0000000000000000
   trp: 0000000000000000 msk: 0000000000000000 cr2: 0000000000000000
  [end of stack trace]
  Calling _exit(1). Core file will not be generated.

Work dir:
  /myriadfs/home/ucbtrr4/Scratch/nextflow/nfcore/test-pipeline/chipseq/work/fa/0e528612e5ff983d061479e7c9c18d

Container:
  /home/ucbtrr4/Scratch/.apptainer/pull/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`