Problem installing additional python libraries on docker image Dolfinx/Dolfinx

1

Hello,

I am trying to create a personalised version of the dolfinx/dolfinx docker image with additional python packages installed via pip.

My Dockerfile is the following :

FROM dolfinx/dolfinx

RUN  mkdir WORK_REPO
RUN  cd  WORK_REPO
WORKDIR  /WORK_REPO

ADD main.py .
ADD requirements.txt .

RUN python3 -c "import sys; print('\n'.join(sys.path))"

CMD ["python3", "-u", "main.py"]

the image builds and runs hello-world python3 script without problem, but i get the following error with pip :

docker run -it --rm  hello_world_lepage bash

root@08fc178dc7a5:/WORK_REPO# python3 --version
Python 3.10.4
root@08fc178dc7a5:/WORK_REPO# pip install torch
Collecting torch
  Downloading torch-1.12.0-cp310-cp310-manylinux1_x86_64.whl (776.3 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 0.0/776.3 MB ? eta -:--:--ERROR: Exception:
Traceback (most recent call last):
  File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 165, in exc_logging_wrapper
    status = run_func(*args)
  File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper
    return func(self, options, args)
  File "/usr/lib/python3/dist-packages/pip/_internal/commands/install.py", line 339, in run
    requirement_set = resolver.resolve(
  File "/usr/lib/python3/dist-packages/pip/_internal/resolution/resolvelib/resolver.py", line 94, in resolve
    result = self._result = resolver.resolve(
  File "/usr/lib/python3/dist-packages/pip/_vendor/resolvelib/resolvers.py", line 481, in resolve
    state = resolution.resolve(requirements, max_rounds=max_rounds)
  File "/usr/lib/python3/dist-packages/pip/_vendor/resolvelib/resolvers.py", line 348, in resolve
    self._add_to_criteria(self.state.criteria, r, parent=None)
  File "/usr/lib/python3/dist-packages/pip/_vendor/resolvelib/resolvers.py", line 172, in _add_to_criteria
    if not criterion.candidates:
  File "/usr/lib/python3/dist-packages/pip/_vendor/resolvelib/structs.py", line 151, in __bool__
    return bool(self._sequence)
  File "/usr/lib/python3/dist-packages/pip/_internal/resolution/resolvelib/found_candidates.py", line 155, in __bool__
    return any(self)
  File "/usr/lib/python3/dist-packages/pip/_internal/resolution/resolvelib/found_candidates.py", line 143, in <genexpr>
    return (c for c in iterator if id(c) not in self._incompatible_ids)
  File "/usr/lib/python3/dist-packages/pip/_internal/resolution/resolvelib/found_candidates.py", line 47, in _iter_built
    candidate = func()
  File "/usr/lib/python3/dist-packages/pip/_internal/resolution/resolvelib/factory.py", line 215, in _make_candidate_from_link
    self._link_candidate_cache[link] = LinkCandidate(
  File "/usr/lib/python3/dist-packages/pip/_internal/resolution/resolvelib/candidates.py", line 288, in __init__
    super().__init__(
  File "/usr/lib/python3/dist-packages/pip/_internal/resolution/resolvelib/candidates.py", line 158, in __init__
    self.dist = self._prepare()
  File "/usr/lib/python3/dist-packages/pip/_internal/resolution/resolvelib/candidates.py", line 227, in _prepare
    dist = self._prepare_distribution()
  File "/usr/lib/python3/dist-packages/pip/_internal/resolution/resolvelib/candidates.py", line 299, in _prepare_distribution
    return preparer.prepare_linked_requirement(self._ireq, parallel_builds=True)
  File "/usr/lib/python3/dist-packages/pip/_internal/operations/prepare.py", line 487, in prepare_linked_requirement
    return self._prepare_linked_requirement(req, parallel_builds)
  File "/usr/lib/python3/dist-packages/pip/_internal/operations/prepare.py", line 532, in _prepare_linked_requirement
    local_file = unpack_url(
  File "/usr/lib/python3/dist-packages/pip/_internal/operations/prepare.py", line 214, in unpack_url
    file = get_http_url(
  File "/usr/lib/python3/dist-packages/pip/_internal/operations/prepare.py", line 94, in get_http_url
    from_path, content_type = download(link, temp_dir.path)
  File "/usr/lib/python3/dist-packages/pip/_internal/network/download.py", line 146, in __call__
    for chunk in chunks:
  File "/usr/lib/python3/dist-packages/pip/_internal/cli/progress_bars.py", line 303, in _rich_progress_bar
    with progress:
  File "/usr/lib/python3/dist-packages/pip/_vendor/rich/progress.py", line 652, in __enter__
    self.start()
  File "/usr/lib/python3/dist-packages/pip/_vendor/rich/progress.py", line 643, in start
    self.live.start(refresh=True)
  File "/usr/lib/python3/dist-packages/pip/_vendor/rich/live.py", line 124, in start
    self._refresh_thread.start()
  File "/usr/lib/python3.10/threading.py", line 928, in start
    _start_new_thread(self._bootstrap, ())
RuntimeError: can't start new thread

This pip error doesn’t appear with the dolfinx/lab image or with normal python:3 image.

does anyone have a solution to this problem ?

thanks in advance.

Nicolas