conda-forge / mnelab-feedstock

A conda-smithy repository for mnelab.

About mnelab-feedstock

Feedstock license: BSD-3-Clause

Home: https://github.com/cbrnr/mnelab

Package license: BSD-3-Clause

Summary: Graphical user interface (GUI) for MNE, a Python-based toolbox for EEG/MEG analysis.

Current build status

Azure

Variant Status linux_64_python3.10.____cpython linux_64_python3.11.____cpython linux_64_python3.8.____cpython linux_64_python3.9.____cpython osx_64_python3.10.____cpython osx_64_python3.11.____cpython osx_64_python3.8.____cpython osx_64_python3.9.____cpython osx_arm64_python3.10.____cpython osx_arm64_python3.11.____cpython osx_arm64_python3.8.____cpython osx_arm64_python3.9.____cpython win_64_python3.10.____cpython win_64_python3.11.____cpython win_64_python3.8.____cpython win_64_python3.9.____cpython

Current release info

Name	Downloads	Version	Platforms

Installing mnelab

Installing mnelab from the conda-forge channel can be achieved by adding conda-forge to your channels with:

conda config --add channels conda-forge
conda config --set channel_priority strict

Once the conda-forge channel has been enabled, mnelab can be installed with conda:

conda install mnelab

or with mamba:

mamba install mnelab

It is possible to list all of the versions of mnelab available on your platform with conda:

conda search mnelab --channel conda-forge

or with mamba:

mamba search mnelab --channel conda-forge

Alternatively, mamba repoquery may provide more information:

# Search all versions available on your platform:
mamba repoquery search mnelab --channel conda-forge

# List packages depending on `mnelab`:
mamba repoquery whoneeds mnelab --channel conda-forge

# List dependencies of `mnelab`:
mamba repoquery depends mnelab --channel conda-forge

About conda-forge

conda-forge is a community-led conda channel of installable packages. In order to provide high-quality builds, the process has been automated into the conda-forge GitHub organization. The conda-forge organization contains one repository for each of the installable packages. Such a repository is known as a feedstock.

A feedstock is made up of a conda recipe (the instructions on what and how to build the package) and the necessary configurations for automatic building using freely available continuous integration services. Thanks to the awesome service provided by Azure, GitHub, CircleCI, AppVeyor, Drone, and TravisCI it is possible to build and upload installable packages to the conda-forge Anaconda-Cloud channel for Linux, Windows and OSX respectively.

To manage the continuous integration and simplify feedstock maintenance conda-smithy has been developed. Using the conda-forge.yml within this repository, it is possible to re-render all of this feedstock's supporting files (e.g. the CI configuration files) with conda smithy rerender.

For more information please check the conda-forge documentation.

Terminology

feedstock - the conda recipe (raw material), supporting scripts and CI configuration.

conda-smithy - the tool which helps orchestrate the feedstock. Its primary use is in the construction of the CI .yml files and simplify the management of many feedstocks.

conda-forge - the place where the feedstock and smithy live and work to produce the finished article (built conda distributions)

Updating mnelab-feedstock

If you would like to improve the mnelab recipe or build a new package version, please fork this repository and submit a PR. Upon submission, your changes will be run on the appropriate platforms to give the reviewer an opportunity to confirm that the changes result in a successful build. Once merged, the recipe will be re-built and uploaded automatically to the conda-forge channel, whereupon the built conda packages will be available for everybody to install and use from the conda-forge channel. Note that all branches in the conda-forge/mnelab-feedstock are immediately built and any created packages are uploaded, so PRs should be based on branches in forks and branches in the main repository should only be used to build distinct package versions.

In order to produce a uniquely identifiable distribution:

• If the version of a package is not being increased, please add or increase the build/number.
• If the version of a package is being increased, please remember to return the build/number back to 0.

Feedstock Maintainers

• @hoechenberger
• @larsoner

mnelab-feedstock's Issues

0.2.0

I've just released MNELAB 0.2.0, it would be great if you could update the package!

Installing mnelab from conda-forge broke my base conda env.

Continuing the conda-specific part of the thread from cbrnr/mnelab#33

According to conda list --revisions the mnelab revision installed/updated the following packages in my case:

2019-07-02 21:21:56  (rev 31)
     ca-certificates  {2019.5.15 -> 2019.6.16 (conda-forge)}
     certifi  {2019.3.9 -> 2019.6.16 (conda-forge)}
     conda  {4.6.14 -> 4.7.5 (conda-forge)}
     openssl  {1.1.1c -> 1.1.1b (conda-forge)}
    +apptools-4.4.0 (conda-forge)
    +bz2file-0.98 (conda-forge)
    +conda-package-handling-1.3.10 (conda-forge)
    +configobj-5.0.6 (conda-forge)
    +dipy-0.16.0 (conda-forge)
    +envisage-4.7.2 (conda-forge)
    +mayavi-4.6.1 (conda-forge)
    +mne-0.18.2 (conda-forge)
    +mnelab-0.1.0 (conda-forge)
    +nibabel-2.4.1 (conda-forge)
    +pydicom-1.2.2 (conda-forge)
    +pyedflib-0.1.14 (conda-forge)
    +pyface-6.1.1 (conda-forge)
    +pysurfer-0.9.0 (conda-forge)
    +python-picard-0.4 (conda-forge)
    +pyxdf-1.15.2 (conda-forge)
    +traits-5.1.1 (conda-forge)
    +traitsui-6.1.1 (conda-forge)
    +vtk-8.1.1

I tried to roll-back to the previous revision, but conda gives unexpected errors now, so its time to put it to sleep and get another one.

Incorrect name in macOS menubar

The name in the macOS menubar is not "MNELAB" but "python". Furthermore, all names inside this menu are "main.py" instead of MNELAB.

@hoechenberger any idea what could be wrong? pyobjc-framework-cocoa is installed.

@conda-forge-admin, please add bot automerge

Issue:

Environment (conda list):

$ conda list

Details about conda and system ( conda info ):

$ conda info

@conda-forge-admin, please add user @larsoner

Old noarch version and files in non-standard labels

@hoechenberger just a heads up that https://anaconda.org/conda-forge/mnelab lists v0.6.3 for the three platforms and v0.5.2 for noarch – is this normal? The website also says that "This package contains files in non-standard labels" – this is probably the reason why it lists this strange installation instruction: conda install -c conda-forge/label/cf202003 mnelab. Maybe everything is fine, but if not it would be cool if this could be fixed.

MNELAB menus don't work on macOS

I just installed MNELAB with conda create -y -n mnelab -c conda-forge mnelab. When I then run MNELAB, the menus don't work (they are shown, but clicking on them has no effect). Otherwise, the app seems to work because I can e.g. open a file with the toolbar icon.

Environment (conda list):

$ conda list
# packages in environment at /Users/clemens/anaconda/envs/mnelab:
#
# Name                    Version                   Build  Channel
apptools                  4.5.0                      py_0    conda-forge
blosc                     1.17.1               h4a8c4bd_0    conda-forge
bzip2                     1.0.8                h0b31af3_2    conda-forge
ca-certificates           2019.11.28           hecc5488_0    conda-forge
certifi                   2019.11.28               py38_0    conda-forge
configobj                 5.0.6                      py_0    conda-forge
curl                      7.65.3               h22ea746_0    conda-forge
cvxopt                    1.2.4           py38hd42b0c3_201    conda-forge
cycler                    0.10.0                     py_2    conda-forge
dbus                      1.13.6               h2f22bb5_0    conda-forge
dipy                      1.1.0            py38h3b54f70_0    conda-forge
dsdp                      5.8               h7674d01_1203    conda-forge
envisage                  4.8.0                      py_0    conda-forge
expat                     2.2.9                h4a8c4bd_1    conda-forge
fftw                      3.3.8           nompi_h44ae4c8_1110    conda-forge
freetype                  2.10.0               h24853df_1    conda-forge
future                    0.18.2                   py38_0    conda-forge
gettext                   0.19.8.1          h46ab8bc_1002    conda-forge
glib                      2.58.3          py38h577aef8_1002    conda-forge
glpk                      4.65              h65ac59c_1002    conda-forge
gmp                       6.2.0                h4a8c4bd_0    conda-forge
gsl                       2.5                  ha2d443c_1    conda-forge
h5py                      2.10.0          nompi_py38h106b333_101    conda-forge
hdf4                      4.2.13            h84186c3_1003    conda-forge
hdf5                      1.10.5          nompi_h3e39495_1104    conda-forge
icu                       64.2                 h6de7cb9_1    conda-forge
imageio                   2.6.1                    py38_0    conda-forge
joblib                    0.14.1                     py_0    conda-forge
jpeg                      9c                h1de35cc_1001    conda-forge
jsoncpp                   1.8.4             ha1b3eb9_1002    conda-forge
kiwisolver                1.1.0            py38ha1b3eb9_0    conda-forge
krb5                      1.16.4               h1752a42_0    conda-forge
libblas                   3.8.0               14_openblas    conda-forge
libcblas                  3.8.0               14_openblas    conda-forge
libclang                  8.0.1                h770b8ee_1    conda-forge
libcurl                   7.65.3               h16faf7d_0    conda-forge
libcxx                    9.0.1                         1    conda-forge
libedit                   3.1.20170329      hcfe32e1_1001    conda-forge
libffi                    3.2.1             h6de7cb9_1006    conda-forge
libgfortran               4.0.0                         2    conda-forge
libiconv                  1.15              h01d97ff_1005    conda-forge
liblapack                 3.8.0               14_openblas    conda-forge
libllvm8                  8.0.1                h770b8ee_0    conda-forge
libnetcdf                 4.7.3           nompi_hda4e5f1_101    conda-forge
libopenblas               0.3.7                h3d69b6c_7    conda-forge
libpng                    1.6.37               h2573ce8_0    conda-forge
libssh2                   1.8.2                hcdc9a53_2    conda-forge
libtiff                   4.1.0                ha78913b_3    conda-forge
libxml2                   2.9.10               h53d96d6_0    conda-forge
llvm-openmp               9.0.1                h28b9765_2    conda-forge
lz4-c                     1.8.3             h6de7cb9_1001    conda-forge
matplotlib                3.1.2                    py38_1    conda-forge
matplotlib-base           3.1.2            py38h11da6c2_1    conda-forge
mayavi                    4.7.1            py38ha91d4f2_2    conda-forge
metis                     5.1.0             h4a8c4bd_1005    conda-forge
mne                       0.19.2                     py_1    conda-forge
mnelab                    0.5.2                      py_0    conda-forge
mock                      3.0.5                    py38_0    conda-forge
ncurses                   6.1               h0a44026_1002    conda-forge
nibabel                   3.0.1                      py_0    conda-forge
nspr                      4.20              h0a44026_1000    conda-forge
nss                       3.47                 hc0980d9_0    conda-forge
numexpr                   2.7.1            py38h4f17bb1_0    conda-forge
numpy                     1.16.5           py38hde6bac1_0    conda-forge
olefile                   0.46                       py_0    conda-forge
openssl                   1.1.1d               h0b31af3_0    conda-forge
pcre                      8.43                 h4a8c4bd_0    conda-forge
pillow                    7.0.0            py38h918e99a_0    conda-forge
pip                       20.0.2                   py38_0    conda-forge
pybv                      0.2.0                      py_0    conda-forge
pydicom                   1.4.1                      py_0    conda-forge
pyedflib                  0.1.15           py38h3b54f70_0    conda-forge
pyface                    6.1.2                      py_0    conda-forge
pygments                  2.5.2                      py_0    conda-forge
pyparsing                 2.4.6                      py_0    conda-forge
pyqt                      5.12.3           py38he22c54c_1    conda-forge
pyqt5-sip                 4.19.18                  pypi_0    pypi
pyqtwebengine             5.12.1                   pypi_0    pypi
pysurfer                  0.9.0              pyh24bf2e0_0    conda-forge
pytables                  3.6.1            py38h6f8395a_1    conda-forge
python                    3.8.1                h5c2c468_1    conda-forge
python-dateutil           2.8.1                      py_0    conda-forge
python-picard             0.4                pyh5ca1d4c_0    conda-forge
pyxdf                     1.16.2                     py_0    conda-forge
qt                        5.12.5               h1b46049_0    conda-forge
readline                  8.0                  hcfe32e1_0    conda-forge
scikit-learn              0.22.1           py38h3dc85bc_1    conda-forge
scipy                     1.4.1            py38h82752d6_0    conda-forge
setuptools                45.1.0                   py38_0    conda-forge
six                       1.14.0                   py38_0    conda-forge
sqlite                    3.30.1               h93121df_0    conda-forge
suitesparse               5.6.0                h0e59142_0    conda-forge
tbb                       2019.9               ha1b3eb9_1    conda-forge
tk                        8.6.10               hbbe82c9_0    conda-forge
tornado                   6.0.3            py38h0b31af3_0    conda-forge
traits                    5.2.0            py38h0b31af3_0    conda-forge
traitsui                  6.1.3                      py_0    conda-forge
vtk                       8.2.0           py38hb651df3_207    conda-forge
wheel                     0.34.1                   py38_0    conda-forge
xz                        5.2.4             h1de35cc_1001    conda-forge
zlib                      1.2.11            h0b31af3_1006    conda-forge
zstd                      1.4.4                he7fca8b_1    conda-forge

Details about conda and system ( conda info ):

$ conda info
     active environment : mnelab
    active env location : /Users/clemens/anaconda/envs/mnelab
            shell level : 1
       user config file : /Users/clemens/.condarc
 populated config files : /Users/clemens/.condarc
          conda version : 4.8.1
    conda-build version : not installed
         python version : 3.7.6.final.0
       virtual packages : __osx=10.15.2
       base environment : /Users/clemens/anaconda  (writable)
           channel URLs : https://repo.anaconda.com/pkgs/main/osx-64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/r/osx-64
                          https://repo.anaconda.com/pkgs/r/noarch
          package cache : /Users/clemens/anaconda/pkgs
                          /Users/clemens/.conda/pkgs
       envs directories : /Users/clemens/anaconda/envs
                          /Users/clemens/.conda/envs
               platform : osx-64
             user-agent : conda/4.8.1 requests/2.22.0 CPython/3.7.6 Darwin/19.2.0 OSX/10.15.2
                UID:GID : 501:20
             netrc file : None
           offline mode : False

Installation does not work

• I read the conda-forge documentation and could not find the solution for my problem there.

Installation does not work, the process seems to get stuck in "solving environments". I used the following command on a freshly installed Anaconda on Windows:

$ conda create -y -n mnelab -c conda-forge mnelab
Collecting package metadata (current_repodata.json): done
Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): /

The same problem occurs with a fresh mambaforge/miniforge installation (which have the conda-forge channel set as the one and only default channel). It does work with mamba though, so conda seems to be seriously broken or at least incredibly slow.

On macOS installation eventually started after a couple of minutes.