Conda env update error on Paperspace

Part 1 (2018) Beginner (2018)
1

After a new git pull of the fast ai libraries I went on to execute conda env update from
my paperspace account and I got the following error dump.

This is where the problem begins:
Exception: Traceback (most recent call last): File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/ init .py”, line 2869, in _dep_map return self.__dep_map File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/ init .py”, line 2663, in getattr raise AttributeError(attr) AttributeError: _DistInfoDistribution__dep_map

Am now unable to invoke jupyter notebook

Any thoughts or suggestions to try?

Using Anaconda API: https://api.anaconda.org Fetching package metadata … Solving package specifications: . Requirement already satisfied: torchvision>=0.1.9 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/torchvision-0.2.0-py3.6.egg (0.2.0) Requirement already satisfied: opencv-python in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (3.4.0.12) Requirement already satisfied: isoweek in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (1.3.3) Requirement already satisfied: pandas_summary==0.0.5 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (0.0.5) Requirement already satisfied: torchtext in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (0.2.1) Requirement already satisfied: graphviz in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (0.8.2) Requirement already satisfied: sklearn_pandas in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (1.6.0) Requirement already satisfied: feather-format in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (0.4.0) Requirement already satisfied: plotnine in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (0.3.0) Requirement already satisfied: kaggle-cli in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (0.12.13) Requirement already satisfied: ipywidgets in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (7.4.2) Requirement already satisfied: numpy in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from torchvision>=0.1.9) (1.15.2) Requirement already satisfied: pillow>=4.1.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from torchvision>=0.1.9) (5.2.0) Requirement already satisfied: six in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from torchvision>=0.1.9) (1.11.0) Requirement already satisfied: torch in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from torchvision>=0.1.9) (0.3.1.post2) Requirement already satisfied: pandas in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from pandas_summary==0.0.5) (0.23.4) Requirement already satisfied: requests in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from torchtext) (2.18.4) Requirement already satisfied: tqdm in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from torchtext) (4.26.0) Requirement already satisfied: scikit-learn>=0.15.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from sklearn_pandas) (0.19.1) Requirement already satisfied: scipy>=0.14 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from sklearn_pandas) (1.1.0) Requirement already satisfied: pyarrow>=0.4.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from feather-format) (0.8.0) Requirement already satisfied: matplotlib>=2.1.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from plotnine) (3.0.0) Requirement already satisfied: mizani>=0.4.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from plotnine) (0.4.4) Requirement already satisfied: patsy>=0.4.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from plotnine) (0.5.0) Requirement already satisfied: statsmodels>=0.8.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from plotnine) (0.9.0) Requirement already satisfied: cssselect<1.1,>=1.0.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from kaggle-cli) (1.0.3) Requirement already satisfied: lxml<4.1,>=4.0.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from kaggle-cli) (4.0.0) Requirement already satisfied: beautifulsoup4<4.7,>=4.6.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from kaggle-cli) (4.6.0) Requirement already satisfied: MechanicalSoup<0.9,>=0.7.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from kaggle-cli) (0.8.0) Requirement already satisfied: progressbar2<3.35,>=3.34.3 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from kaggle-cli) (3.34.3) Requirement already satisfied: configparser in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from kaggle-cli) (3.5.0) Requirement already satisfied: cliff<2.9,>=2.8.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from kaggle-cli) (2.8.0) Requirement already satisfied: widgetsnbextension~=3.4.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipywidgets) (3.4.2) Requirement already satisfied: ipykernel>=4.5.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipywidgets) (5.0.0) Requirement already satisfied: traitlets>=4.3.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipywidgets) (4.3.2) Requirement already satisfied: ipython>=4.0.0; python_version >= “3.3” in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipywidgets) (6.5.0) Requirement already satisfied: nbformat>=4.2.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipywidgets) (4.4.0) Requirement already satisfied: pyyaml in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from torch->torchvision>=0.1.9) (3.12) Requirement already satisfied: python-dateutil>=2.5.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from pandas->pandas_summary==0.0.5) (2.7.3) Requirement already satisfied: pytz>=2011k in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from pandas->pandas_summary==0.0.5) (2018.5) Requirement already satisfied: chardet<3.1.0,>=3.0.2 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from requests->torchtext) (3.0.4) Requirement already satisfied: idna<2.7,>=2.5 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from requests->torchtext) (2.6) Requirement already satisfied: urllib3<1.23,>=1.21.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from requests->torchtext) (1.22) Requirement already satisfied: certifi>=2017.4.17 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from requests->torchtext) (2018.8.24) Requirement already satisfied: cycler>=0.10 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from matplotlib>=2.1.0->plotnine) (0.10.0) Requirement already satisfied: kiwisolver>=1.0.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from matplotlib>=2.1.0->plotnine) (1.0.1) Requirement already satisfied: pyparsing!=2.0.4,!=2.1.2,!=2.1.6,>=2.0.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from matplotlib>=2.1.0->plotnine) (2.2.1) Requirement already satisfied: palettable in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from mizani>=0.4.1->plotnine) (3.1.0) Requirement already satisfied: python-utils>=2.1.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from progressbar2<3.35,>=3.34.3->kaggle-cli) (2.2.0) Requirement already satisfied: cmd2>=0.6.7 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from cliff<2.9,>=2.8.0->kaggle-cli) (0.7.9) Requirement already satisfied: stevedore>=1.20.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from cliff<2.9,>=2.8.0->kaggle-cli) (1.28.0) Requirement already satisfied: PrettyTable<0.8,>=0.7.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from cliff<2.9,>=2.8.0->kaggle-cli) (0.7.2) Requirement already satisfied: pbr!=2.1.0,>=2.0.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from cliff<2.9,>=2.8.0->kaggle-cli) (3.1.1) Requirement already satisfied: notebook>=4.4.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from widgetsnbextension~=3.4.0->ipywidgets) (5.7.0) Requirement already satisfied: jupyter_client in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipykernel>=4.5.1->ipywidgets) (5.2.3) Requirement already satisfied: tornado>=4.2 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipykernel>=4.5.1->ipywidgets) (4.5.3) Requirement already satisfied: decorator in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from traitlets>=4.3.1->ipywidgets) (4.3.0) Requirement already satisfied: ipython-genutils in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from traitlets>=4.3.1->ipywidgets) (0.2.0) Requirement already satisfied: simplegeneric>0.8 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipython>=4.0.0; python_version >= “3.3”->ipywidgets) (0.8.1) Requirement already satisfied: prompt-toolkit<2.0.0,>=1.0.15 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipython>=4.0.0; python_version >= “3.3”->ipywidgets) (1.0.15) Requirement already satisfied: backcall in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipython>=4.0.0; python_version >= “3.3”->ipywidgets) (0.1.0) Requirement already satisfied: pexpect; sys_platform != “win32” in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipython>=4.0.0; python_version >= “3.3”->ipywidgets) (4.6.0) Requirement already satisfied: jedi>=0.10 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipython>=4.0.0; python_version >= “3.3”->ipywidgets) (0.12.1) Requirement already satisfied: setuptools>=18.5 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipython>=4.0.0; python_version >= “3.3”->ipywidgets) (40.4.0) Requirement already satisfied: pickleshare in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipython>=4.0.0; python_version >= “3.3”->ipywidgets) (0.7.5) Requirement already satisfied: pygments in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from ipython>=4.0.0; python_version >= “3.3”->ipywidgets) (2.2.0) Requirement already satisfied: jsonschema!=2.5.0,>=2.4 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from nbformat>=4.2.0->ipywidgets) (2.6.0) Requirement already satisfied: jupyter_core in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from nbformat>=4.2.0->ipywidgets) (4.4.0) Requirement already satisfied: pyperclip in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from cmd2>=0.6.7->cliff<2.9,>=2.8.0->kaggle-cli) (1.6.0) Requirement already satisfied: jinja2 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (2.10) Requirement already satisfied: pyzmq>=17 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (17.1.2) Requirement already satisfied: nbconvert in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (5.4.0) Requirement already satisfied: Send2Trash in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (1.5.0) Requirement already satisfied: terminado>=0.8.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (0.8.1) Requirement already satisfied: prometheus_client in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (0.3.0) Requirement already satisfied: wcwidth in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from prompt-toolkit<2.0.0,>=1.0.15->ipython>=4.0.0; python_version >= “3.3”->ipywidgets) (0.1.7) Requirement already satisfied: ptyprocess>=0.5 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from pexpect; sys_platform != “win32”->ipython>=4.0.0; python_version >= “3.3”->ipywidgets) (0.5.2) Requirement already satisfied: parso>=0.3.0 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from jedi>=0.10->ipython>=4.0.0; python_version >= “3.3”->ipywidgets) (0.3.1) Requirement already satisfied: MarkupSafe>=0.23 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from jinja2->notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (1.0) Requirement already satisfied: mistune>=0.8.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (0.8.3) Requirement already satisfied: entrypoints>=0.2.2 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (0.2.3) Requirement already satisfied: bleach in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (2.1.4) Requirement already satisfied: pandocfilters>=1.4.1 in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (1.4.2) Requirement already satisfied: testpath in /home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.4.0->ipywidgets) (0.4.1) Exception: Traceback (most recent call last): File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2869, in _dep_map return self.__dep_map File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2663, in getattr raise AttributeError(attr) AttributeError: _DistInfoDistribution__dep_map During handling of the above exception, another exception occurred: Traceback (most recent call last): File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/packaging/requirements.py”, line 93, in init req = REQUIREMENT.parseString(requirement_string) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 1632, in parseString raise exc File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 1622, in parseString loc, tokens = self._parse( instring, 0 ) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 1379, in _parseNoCache loc,tokens = self.parseImpl( instring, preloc, doActions ) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 3395, in parseImpl loc, exprtokens = e._parse( instring, loc, doActions ) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 1383, in _parseNoCache loc,tokens = self.parseImpl( instring, preloc, doActions ) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 3183, in parseImpl raise ParseException(instring, loc, self.errmsg, self) pip._vendor.pyparsing.ParseException: Expected stringEnd (at char 33), (line:1, col:34) During handling of the above exception, another exception occurred: Traceback (most recent call last): File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2949, in init super(Requirement, self).init(requirement_string) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/packaging/requirements.py”, line 97, in init requirement_string[e.loc:e.loc + 8])) pip._vendor.packaging.requirements.InvalidRequirement: Invalid requirement, parse error at “’; extra '” During handling of the above exception, another exception occurred: Traceback (most recent call last): File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_internal/basecommand.py”, line 141, in main status = self.run(options, args) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_internal/commands/install.py”, line 299, in run resolver.resolve(requirement_set) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_internal/resolve.py”, line 102, in resolve self._resolve_one(requirement_set, req) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_internal/resolve.py”, line 306, in _resolve_one set(req_to_install.extras) - set(dist.extras) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2826, in extras return [dep for dep in self._dep_map if dep] File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2871, in _dep_map self.__dep_map = self._compute_dependencies() File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2881, in _compute_dependencies reqs.extend(parse_requirements(req)) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2942, in parse_requirements yield Requirement(line) File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2951, in init raise RequirementParseError(str(e)) pip._vendor.pkg_resources.RequirementParseError: Invalid requirement, parse error at “’; extra '” CondaValueError: pip returned an error.

3 Likes
2

I’m having same problem. Can’t even run jupyter now. I think this is the same problem as Issues with ‘conda env update’.

3

Same error as well, specifically:

pip._vendor.pkg_resources.RequirementParseError: Invalid requirement, parse error at “’; extra '”

At the end. Is the problem on the FastAI or python end?

4

Ooo, I’ve been working at this.

I think I found a hack that fixes this. Basically what you do (starting fresh):

  1. comment out the 4 jupyter lines in environment.yml
  2. run conda env update
  3. manually install the packages that weren’t installed (mkl-random, cython, etc)
  4. manually install the 4 jupyter packages that you commented out.

That should work.

My guess is something’s up with the jupyter_contrib_nbextensions package (which btw you install via: conda install -c conda-forge jupyter_contrib_nbextensions).

2 Likes
5

Process described above works. Thanks to you and the original thread poster.

7

Thanks for the detective work!

I’ve commented out jupyter_contrib_nbextensions for now. Let me know if that helps. I don’t think the issue here is with our repo, but seems to be upstream.

3 Likes
8

Hey, for me it seems that the problem is not with the jupyter_contrib_nbextensions.
https://github.com/jupyter/notebook/pull/4036 is where i get the problem.
Any suggestions?

9

Well spotted. I’ve removed all the jupyter deps now, and added a comment to that github page.

10

I am pretty new to all of the echo system of jupyter so it great if you could post a link to the github page that the bug is in.
Or even better the commit itself that made it.
Thanks

11

Thanks for the help with this issue and the (hopefully) temporary fix. Appreciate the help so we
can continue our learning journey!!

12

Update: It seems like there is a problem with the current of nbconvert or its dependencies that
anaconda installs.
For some reason it breaks pip after you install it with conda install
I have found a work around and I just installed the package with pip.

see https://github.com/jupyter/notebook/pull/4036/commits/4c1d62f3b21af6f139d8396081578d0c1646a632

Cheers

13

I just tried to get started today with a brand new Paperspace instance. I did a git pull first, but conda env update continues to give similar errors to what others have seen:

Exception:
Traceback (most recent call last):
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2862, in _dep_map
return self.__dep_map
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2669, in getattr
raise AttributeError(attr)
AttributeError: _DistInfoDistribution__dep_map

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/packaging/requirements.py”, line 93, in init
req = REQUIREMENT.parseString(requirement_string)
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 1632, in parseString
raise exc
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 1622, in parseString
loc, tokens = self._parse( instring, 0 )
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 1379, in _parseNoCache
loc,tokens = self.parseImpl( instring, preloc, doActions )
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 3395, in parseImpl
loc, exprtokens = e._parse( instring, loc, doActions )
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 1383, in _parseNoCache
loc,tokens = self.parseImpl( instring, preloc, doActions )
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pyparsing.py”, line 3183, in parseImpl
raise ParseException(instring, loc, self.errmsg, self)
pip._vendor.pyparsing.ParseException: Expected stringEnd (at char 33), (line:1, col:34)

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2942, in init
super(Requirement, self).init(requirement_string)
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/packaging/requirements.py”, line 97, in init
requirement_string[e.loc:e.loc + 8]))
pip._vendor.packaging.requirements.InvalidRequirement: Invalid requirement, parse error at “’; extra '”

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_internal/basecommand.py”, line 228, in main
status = self.run(options, args)
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_internal/commands/install.py”, line 291, in run
resolver.resolve(requirement_set)
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_internal/resolve.py”, line 103, in resolve
self._resolve_one(requirement_set, req)
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_internal/resolve.py”, line 307, in _resolve_one
set(req_to_install.extras) - set(dist.extras)
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2819, in extras
return [dep for dep in self._dep_map if dep]
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2864, in _dep_map
self.__dep_map = self._compute_dependencies()
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2874, in _compute_dependencies
reqs.extend(parse_requirements(req))
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2935, in parse_requirements
yield Requirement(line)
File “/home/paperspace/anaconda3/envs/fastai/lib/python3.6/site-packages/pip/_vendor/pkg_resources/init.py”, line 2944, in init
raise RequirementParseError(str(e))
pip._vendor.pkg_resources.RequirementParseError: Invalid requirement, parse error at “’; extra '”

The jupyter lines are commented out in environment.yml.

Any suggestions for how to get this running?

14

facing the same issue now. The lines in enviroment.yml are commented out but condo env update still fails.

16

hey,
I noticed the environment.yml has all Jupiter related line commented, but still with conda env update I get the same issue. Any solution for this?

17

I uncommented jupyter deps and only commented pip installs and installed them manually from conda, it worked. But none of the other solutions I read so far seemed to work for me. Ubuntu 18.04 on AWS.

Edit: Still I got some issues with the above approach. So I ended up launching a Ubuntu 16.04 instance and downgrading ‘testpath’ regarding https://github.com/conda-forge/testpath-feedstock/issues/7. Now conda env update works without any disturbance and additional need of commenting out. You may change it to testpath<0.4.

1 Like
18

The problem I have after update is the following :
It seems that I can Update butI have activation problem and for now I have no fastai on my Notebook on Paperspace.

I get the error:

to activate this envirounment use:
source activate fastai

and when I tray to run this command I get the following error:

source: not found

after some searches I tried :

conda activate fastai

I also get error:

CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'.
If your shell is Bash or a Bourne variant, enable conda for the current user with

$ echo ". /opt/conda/etc/profile.d/conda.sh" >> ~/.bashrc

or, for all users, enable conda with

$ sudo ln -s /opt/conda/etc/profile.d/conda.sh /etc/profile.d/conda.sh

The options above will permanently enable the 'conda' command, but they do NOT
put conda's base (root) environment on PATH. To do so, run

$ conda activate

in your terminal, or to put the base environment on PATH permanently, run

$ echo "conda activate" >> ~/.bashrc

Previous to conda 4.4, the recommended way to activate conda was to modify PATH in
your ~/.bashrc file. You should manually remove the line that looks like

export PATH="/opt/conda/bin:$PATH"

after trying all the above mentioned command I still cget the same error as above after running the command.

I also tried:

activate conda

and it also give me the error:

/bin/sh: 8: activate: Permission denied

P.S. I use Paperspace
any help is appreciated

19

Hey, just to double check that you have the fastai environment listed by typing in “conda info --envs” . Also what happens if you type in “type -a source”?

20

Apparently the latest testpath is fixed, so I’ve just modified environment.yml to require it. Let me know if that fixes the issue.

1 Like
21

Hi Jeremy. I get the following error now:

# conda env update
Solving environment: failed

ResolvePackageNotFound:
- testpath[version='>=0.4.2']

22

here are the results:

$ conda info --envs

$ conda environments:

base * /opt/conda
fastai /opt/conda/envs/fastai

#############

$ type -a source
-a: not found
source: not found

both of them run from root directory where environment.yml is located