Closed paulmaxus closed 5 months ago
martinRenou
commented
1 year ago I'm not a Windows user, but this path \\tmp\\xeus-python-kernel\\envs\\xeus-python-kernel\\Scripts/pygmentize-script.py does not look correct for Windows, or is it?
@derthorsten do you know why this path could look like this and if that could lead to issues?
paulmaxus
commented
1 year ago Isn't this issue a xeus-python issue, i.e. related to https://github.com/jupyterlite/xeus-python-kernel/issues/124
martinRenou
commented
1 year ago It is indeed a xeus-python-kernel issue IMO. Probably that it does not work well yet on windows.
glw
commented
8 months ago Im having a similar issue when building the demo app for Voici in windows. Calling voici notebooks/ leads to an error, that I think is very similar to the one above.
WindowsPath('/tmp/xeus-python-kernel/envs/xeus-python-kernel'),
Here's some more context:
File "C:\Users\user\miniconda3\envs\voiciV2\lib\subprocess.py", line 528, in run
raise CalledProcessError(retcode, process.args,
subprocess.CalledProcessError: Command '['C:\\Users\\user\\miniconda3\\condabin\\conda.BAT', 'install', '--yes', '--prefix', WindowsPath('/tmp/xeus-python-kernel/envs/xeus-python-kernel'), '-c', 'https://repo.mamba.pm/emscripten-forge', '-c', 'https://repo.mamba.pm/conda-forge', 'python=3.10', 'xeus-lite', 'xeus-python=0.15.9', 'ipywidgets=8.0.6', 'jupyterlab_widgets=3.0.7']' returned non-zero exit status 1. Can you check that you are using the latest empack and jupyterlite-xeus-python versions?
glw
commented
8 months ago Hi Im using the version below I believe all of them are the latest.
xeus-python=0.15.8 xeus-python-shell=0.5.0 jupyterlite-xeus-python=0.9.6 empack=3.1.4
glw
commented
8 months ago Ive gone ahead and create a new environment since I was having trouble recalling how I originally built the last one. Unfortunately Im running into the same issue. Additionally I would point out this error as well.
InvalidArchiveError('Error with archive C:\\Users\\user\\miniconda3\\pkgs\\python-3.10.2-h_hash_28_cpython.tar.bz2. You probably need to delete and re-download or re-create this file. Message was:\n\nfailed with error: seeking backwards is not allowed')
Seems that cpython file downloaded here may have issues.
The full ouput is here
trungleduc
commented
5 months ago This should be fixed in 0.6.0, xeus-python-kernel is replaced by jupyterlite_xeus. Please feel free to re-open if needed.
Description
When building the application an error is raised while attempting to install packages into the xeus-python-kernel conda environment.
Reproduce
voici build --contents(see complete CLI output under Context) Voici seems to build the app without any issues. Then, when the xeus kernel environment is created under C:\tmp\xeus-python-kernel\envs\xeus-python-kernel, packages are being downloaded and installed but then I run into this error:
[VoiciBuildApp] ERROR | [lite] [post_build] [jupyterlite-xeus-python] [ERR] [Errno 2] No such file or directory: '\\tmp\\xeus-python-kernel\\envs\\xeus-python-kernel\\Scripts/pygmentize-script.py'(complete output below)My only guess is that this is related to the xeus-python-kernel environment being created globally, while the conda installation is local.
Context
Command Line Output
```shell $ voici build --contents notebooks static:jupyter-lite.json . pre_status:static:jupyter-lite.json tarball: jupyterlite-app-0.1.0.tgz 7MB output: C:\Users\user\project\_output lite dir: C:\Users\user\project apps: voici sourcemaps: True unused packages: True archive:archive contents:contents lite:jupyter-lite.json mathjax:status mimetypes:jupyter-lite.json serve:contents settings:overrides translation:translation . status:archive:archive [VoiciBuildApp] No archive (yet): project-jupyterlite.tgz . status:contents:contents contents: 1 files . status:lite:jupyter-lite.json [VoiciBuildApp] jupyter-lite.(json|ipynb): 0 files . status:mathjax:status jupyter-server-mathjax: None configured MathJax dir: C:\Users\user\project\traitlets.Undefined effective MathJax dir: None . status:mimetypes:jupyter-lite.json filetypes: 26 . status:serve:contents url: http://127.0.0.1:8000/ server: tornado headers: . status:settings:overrides overrides.json: 0 . status:translation:translation translation files: 2 files static:output_dir -- pre_init:static:output_dir static:unpack -- init:static:unpack [VoiciBuildApp] WARNING | [static] app 'voici' is not one of: {'lab', 'repl', 'retro'} static:prune:C:\Users\user\project\_output\lab static:prune:C:\Users\user\project\_output\repl static:prune:C:\Users\user\project\_output\retro . post_init:static:prune:C:\Users\user\project\_output\lab . post_init:static:prune:C:\Users\user\project\_output\repl . post_init:static:prune:C:\Users\user\project\_output\retro federated_extensions:copy:ext:ipysigma federated_extensions:copy:ext:jupyterlab_pygments federated_extensions:copy:ext:@jupyter-widgets/jupyterlab-manager federated_extensions:copy:ext:@jupyterlite/xeus-python-kernel federated_extensions:copy:ext:@voila-dashboards/jupyterlab-preview -- pre_build:federated_extensions:copy:ext:ipysigma -- pre_build:federated_extensions:copy:ext:jupyterlab_pygments -- pre_build:federated_extensions:copy:ext:@jupyter-widgets/jupyterlab-manager -- pre_build:federated_extensions:copy:ext:@jupyterlite/xeus-python-kernel -- pre_build:federated_extensions:copy:ext:@voila-dashboards/jupyterlab-preview contents:copy:test.ipynb translation:copy -- build:contents:copy:test.ipynb -- build:translation:copy contents:contents:. federated_extensions:patch jupyterlite-xeus-python:xeus:copy:ext:@jupyterlite/xeus-python-kernel Collecting package metadata (current_repodata.json): done Solving environment: done ## Package Plan ## environment location: C:\tmp\xeus-python-kernel\envs\xeus-python-kernel Preparing transaction: done Verifying transaction: done Executing transaction: done # # To activate this environment, use # # $ conda activate C:\tmp\xeus-python-kernel\envs\xeus-python-kernel # # To deactivate an active environment, use # # $ conda deactivate Collecting package metadata (current_repodata.json): done Solving environment: / Warning: >10 possible package resolutions (only showing differing packages): - conda-forge/noarch::backports.functools_lru_cache-1.6.4-pyhd8ed1ab_0, conda-forge/noarch::executing-1.2.0-pyhd8ed1ab_0, conda-forge/noarch::pure_eval-0.2.2-pyhd8ed1ab_0, co nda-forge/noarch::six-1.16.0-pyh6c4a22f_0 - conda-forge/noarch::executing-1.2.0-pyhd8ed1ab_0, conda-forge/noarch::pure_eval-0.2.2-pyhd8ed1ab_0, conda-forge/noarch::six-1.16.0-pyh6c4a22f_0, https://repo.mamba.pm/conda -forge/noarch::backports.functools_lru_cache-1.6.4-pyhd8ed1ab_0 - conda-forge/noarch::backports.functools_lru_cache-1.6.4-pyhd8ed1ab_0, conda-forge/noarch::executing-1.2.0-pyhd8ed1ab_0, conda-forge/noarch::pure_eval-0.2.2-pyhd8ed1ab_0, ht tps://repo.mamba.pm/conda-forge/noarch::six-1.16.0-pyh6c4a22f_0 - conda-forge/noarch::executing-1.2.0-pyhd8ed1ab_0, conda-forge/noarch::pure_eval-0.2.2-pyhd8ed1ab_0, https://repo.mamba.pm/conda-forge/noarch::backports.functools_lru_cache- 1.6.4-pyhd8ed1ab_0, https://repo.mamba.pm/conda-forge/noarch::six-1.16.0-pyh6c4a22f_0 - conda-forge/noarch::backports.functools_lru_cache-1.6.4-pyhd8ed1ab_0, conda-forge/noarch::pure_eval-0.2.2-pyhd8ed1ab_0, https://repo.mamba.pm/conda-forge/noarch::executing- 1.2.0-pyhd8ed1ab_0, https://repo.mamba.pm/conda-forge/noarch::six-1.16.0-pyh6c4a22f_0 - conda-forge/noarch::pure_eval-0.2.2-pyhd8ed1ab_0, https://repo.mamba.pm/conda-forge/noarch::backports.functools_lru_cache-1.6.4-pyhd8ed1ab_0, https://repo.mamba.pm/conda-fo rge/noarch::executing-1.2.0-pyhd8ed1ab_0, https://repo.mamba.pm/conda-forge/noarch::six-1.16.0-pyh6c4a22f_0 - conda-forge/noarch::backports.functools_lru_cache-1.6.4-pyhd8ed1ab_0, conda-forge/noarch::pure_eval-0.2.2-pyhd8ed1ab_0, conda-forge/noarch::six-1.16.0-pyh6c4a22f_0, https:/ /repo.mamba.pm/conda-forge/noarch::executing-1.2.0-pyhd8ed1ab_0 - conda-forge/noarch::pure_eval-0.2.2-pyhd8ed1ab_0, conda-forge/noarch::six-1.16.0-pyh6c4a22f_0, https://repo.mamba.pm/conda-forge/noarch::backports.functools_lru_cache-1.6.4 -pyhd8ed1ab_0, https://repo.mamba.pm/conda-forge/noarch::executing-1.2.0-pyhd8ed1ab_0 - conda-forge/noarch::backports.functools_lru_cache-1.6.4-pyhd8ed1ab_0, conda-forge/noarch::six-1.16.0-pyh6c4a22f_0, https://repo.mamba.pm/conda-forge/noarch::executing-1.2.0 -pyhd8ed1ab_0, https://repo.mamba.pm/conda-forge/noarch::pure_eval-0.2.2-pyhd8ed1ab_0 - conda-forge/noarch::backports.functools_lru_cache-1.6.4-pyhd8ed1ab_0, conda-forge/noarch::executing-1.2.0-pyhd8ed1ab_0, conda-forge/noarch::six-1.16.0-pyh6c4a22f_0, https:/ /repo.mamba.pm/conda-forge/noarch::pure_eval-0.2.2-pyhd8ed1ab_0 ... and othedone ## Package Plan ## environment location: C:\tmp\xeus-python-kernel\envs\xeus-python-kernel added / updated specs: - python=3.10 - xeus-lite - xeus-python=0.15.7 The following packages will be downloaded: package | build ---------------------------|----------------- setuptools-64.0.0 | py310h8bed8af_0 758 KB https://repo.mamba.pm/emscripten-forge ------------------------------------------------------------ Total: 758 KB The following NEW packages will be INSTALLED: asttokens conda-forge/noarch::asttokens-2.2.1-pyhd8ed1ab_0 backcall conda-forge/noarch::backcall-0.2.0-pyh9f0ad1d_0 backports conda-forge/noarch::backports-1.0-pyhd8ed1ab_3 backports.functoo~ conda-forge/noarch::backports.functools_lru_cache-1.6.4-pyhd8ed1ab_0 decorator conda-forge/noarch::decorator-5.1.1-pyhd8ed1ab_0 emscripten-abi emscripten-forge/noarch::emscripten-abi-3.1.27-hb0f4dca_6 executing conda-forge/noarch::executing-1.2.0-pyhd8ed1ab_0 ipython emscripten-forge/emscripten-32::ipython-7.32.0-py310h8bed8af_1 jedi conda-forge/noarch::jedi-0.18.2-pyhd8ed1ab_0 matplotlib-inline conda-forge/noarch::matplotlib-inline-0.1.6-pyhd8ed1ab_0 numpy emscripten-forge/emscripten-32::numpy-1.24.3-py310h6d2fff6_0 parso conda-forge/noarch::parso-0.8.3-pyhd8ed1ab_0 pexpect conda-forge/noarch::pexpect-4.8.0-pyh1a96a4e_2 pickleshare conda-forge/noarch::pickleshare-0.7.5-py_1003 pip conda-forge/noarch::pip-23.1.2-pyhd8ed1ab_0 prompt-toolkit conda-forge/noarch::prompt-toolkit-3.0.38-pyha770c72_0 ptyprocess conda-forge/noarch::ptyprocess-0.7.0-pyhd3deb0d_0 pure_eval conda-forge/noarch::pure_eval-0.2.2-pyhd8ed1ab_0 pygments conda-forge/noarch::pygments-2.15.1-pyhd8ed1ab_0 pyparsing conda-forge/noarch::pyparsing-3.1.0-pyhd8ed1ab_0 python emscripten-forge/emscripten-32::python-3.10.2-h_hash_26_cpython requests-wasm-pol~ emscripten-forge/emscripten-32::requests-wasm-polyfill-0.3.0-h8bed8af_0 setuptools emscripten-forge/emscripten-32::setuptools-64.0.0-py310h8bed8af_0 six conda-forge/noarch::six-1.16.0-pyh6c4a22f_0 stack_data conda-forge/noarch::stack_data-0.6.2-pyhd8ed1ab_0 traitlets conda-forge/noarch::traitlets-5.9.0-pyhd8ed1ab_0 wcwidth conda-forge/noarch::wcwidth-0.2.6-pyhd8ed1ab_0 wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0 xeus-lite emscripten-forge/emscripten-32::xeus-lite-1.0.1-hf0acc6b_0 xeus-python emscripten-forge/emscripten-32::xeus-python-0.15.7-h4d17c68_0 xeus-python-shell conda-forge/noarch::xeus-python-shell-0.5.0-pyhd8ed1ab_0 xeus-python-shell~ conda-forge/noarch::xeus-python-shell-raw-0.5.0-pyhd8ed1ab_0 Downloading and Extracting Packages Preparing transaction: done Verifying transaction: done Executing transaction: done Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 89 compressed package into 4178 compressed in 7 ms Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 10786149 compressed package into 5682024 compressed in 221 ms Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 83 compressed package into 4172 compressed in 10 ms Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 34000 compressed package into 22095 compressed in 15 ms Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 83 compressed package into 4172 compressed in 7 ms Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 16989 compressed package into 14392 compressed in 14 ms Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 67051 compressed package into 42028 compressed in 20 ms Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 15510210 compressed package into 8169834 compressed in 252 ms Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 268518 compressed package into 152873 compressed in 125 ms Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 10134 compressed package into 10521 compressed in 31 ms Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 37210 compressed package into 26796 compressed in 51 ms Remember to build the main file with `-sFORCE_FILESYSTEM` so that it includes support for loading this file package compressing package of size 24296 compressed package into 17358 compressed in 42 ms [VoiciBuildApp] ERROR | [lite] [post_build] [jupyterlite-xeus-python] [ERR] [Errno 2] No such file or directory: '\\tmp\\xeus-python-kernel\\envs\\xeus-python-kernel\\Scripts/p ygmentize-script.py' Traceback (most recent call last): File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\doit_cmd.py", line 294, in run return command.parse_execute(args) File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\cmd_base.py", line 150, in parse_execute return self.execute(params, args) File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\cmd_base.py", line 570, in execute return self._execute(**exec_params) File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\cmd_run.py", line 265, in _execute return runner.run_all(self.control.task_dispatcher()) File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\runner.py", line 254, in run_all self.run_tasks(task_dispatcher) File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\runner.py", line 213, in run_tasks node = task_dispatcher.generator.send(node) File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\control.py", line 629, in _dispatcher_generator next_step = node.step() File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\control.py", line 336, in step return next(self.generator) File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\control.py", line 345, in _func for value in decorated(*args, **kwargs): File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\control.py", line 473, in _add_task new_tasks = generate_tasks(to_load, task_gen, ref.__doc__) File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\loader.py", line 390, in generate_tasks for task_dict, x_doc in flat_generator(gen_result, gen_doc): File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\doit\loader.py", line 27, in flat_generator for item in gen: File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\jupyterlite_core\manager.py", line 145, in _delayed_gather for task in _gather(): File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\jupyterlite_core\manager.py", line 138, in _gather raise error File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\jupyterlite_core\manager.py", line 128, in _gather for task in getattr(addon, attr)(self): File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\jupyterlite_xeus_python\env_build_addon.py", line 79, in post_build env_prefix = build_and_pack_emscripten_env( File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\jupyterlite_xeus_python\build.py", line 246, in build_and_pack_emscripten_env raise e File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\jupyterlite_xeus_python\build.py", line 211, in build_and_pack_emscripten_env split_pack_environment( File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\empack\file_packager.py", line 184, in split_pack_environment has_any_files = split_filter_pkg( File "C:\Users\user\AppData\Local\miniconda3\lib\site-packages\empack\filter_env.py", line 76, in split_filter_pkg shutil.copy(os.path.join(env_prefix, file), dest_fpath) File "C:\Users\user\AppData\Local\miniconda3\lib\shutil.py", line 417, in copy copyfile(src, dst, follow_symlinks=follow_symlinks) File "C:\Users\user\AppData\Local\miniconda3\lib\shutil.py", line 254, in copyfile with open(src, 'rb') as fsrc: FileNotFoundError: [Errno 2] No such file or directory: '\\tmp\\xeus-python-kernel\\envs\\xeus-python-kernel\\Scripts/pygmentize-script.py' ```