Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Difficult to get running on MacOS #7

Open
pinin4fjords opened this issue Nov 27, 2023 · 0 comments
Open

Difficult to get running on MacOS #7

pinin4fjords opened this issue Nov 27, 2023 · 0 comments

Comments

@pinin4fjords
Copy link
Member

My usual Mac tricks fail here.

With Docker profile (with export CONDA_SUBDIR=osx-64):

ERROR ~ Error executing process > 'NF_AGGREGATE:SEQERA_RUNS_DUMP (38QXz4OfQDpwOV)'

Caused by:
  Process `NF_AGGREGATE:SEQERA_RUNS_DUMP (38QXz4OfQDpwOV)` terminated with an error exit status (1)

Command executed:

  tw \
       \
      --url=https://api.tower.nf \
      --access-token=$TOWER_ACCESS_TOKEN \
      runs \
      dump \
      -id=38QXz4OfQDpwOV \
      --workspace=community/showcase \
      --output="38QXz4OfQDpwOV.tar.gz" \
      --add-task-logs --add-fusion-logs
  
  mkdir 38QXz4OfQDpwOV
  tar \
      -xvf \
      38QXz4OfQDpwOV.tar.gz \
      -C 38QXz4OfQDpwOV
  
  cp 38QXz4OfQDpwOV/workflow.json .
  
  cat <<-END_VERSIONS > versions.yml
  "NF_AGGREGATE:SEQERA_RUNS_DUMP":
      seqera-cli: $(echo $(tw --version 2>&1) | sed 's/^.*Tower CLI version //; s/ *$//')
  END_VERSIONS

Command exit status:
  1

Command output:
  (empty)

Command error:
  The current machine does not support all of the following CPU features that are required by the image: [CX8, CMOV, FXSR, MMX, SSE, SSE2, SSE3, SSSE3, SSE4_1, SSE4_2, POPCNT, LZCNT, AVX, AVX2, BMI1, BMI2, FMA].
  Please rebuild the executable with an appropriate setting of the -march option.

Work dir:
  /Users/jonathan.manning/projects/nf-aggregate/work/5d/ba6e256d861a138dbdef13f0475bf4

Tip: you can try to figure out what's wrong by changing to the process work dir and showing the script file named `.command.sh`

 -- Check '.nextflow.log' file for details

With conda:

ERROR ~ Error executing process > 'NF_AGGREGATE:SEQERA_RUNS_DUMP (2lXd1j7OwZVfxh)'

Caused by:
  Process `NF_AGGREGATE:SEQERA_RUNS_DUMP (2lXd1j7OwZVfxh)` terminated with an error exit status (137)

Command executed:

  tw \
       \
      --url=https://api.tower.nf \
      --access-token=$TOWER_ACCESS_TOKEN \
      runs \
      dump \
      -id=2lXd1j7OwZVfxh \
      --workspace=community/showcase \
      --output="2lXd1j7OwZVfxh.tar.gz" \
      --add-task-logs --add-fusion-logs
  
  mkdir 2lXd1j7OwZVfxh
  tar \
      -xvf \
      2lXd1j7OwZVfxh.tar.gz \
      -C 2lXd1j7OwZVfxh
  
  cp 2lXd1j7OwZVfxh/workflow.json .
  
  cat <<-END_VERSIONS > versions.yml
  "NF_AGGREGATE:SEQERA_RUNS_DUMP":
      seqera-cli: $(echo $(tw --version 2>&1) | sed 's/^.*Tower CLI version //; s/ *$//')
  END_VERSIONS

Command exit status:
  137

Command output:
  (empty)

Command error:
  .command.sh: line 11: 85350 Killed: 9               tw --url=https://api.tower.nf --access-token=$TOWER_ACCESS_TOKEN runs dump -id=2lXd1j7OwZVfxh --workspace=community/showcase --output="2lXd1j7OwZVfxh.tar.gz" --add-task-logs --add-fusion-logs

Work dir:
  /Users/jonathan.manning/projects/nf-aggregate/work/5e/42bd1d4d5748b4db6973e837813fcf

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

 -- Check '.nextflow.log' file for details
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant