devbio-napari
devbio-napari copied to clipboard
Published
20 hours ago •
haesleinhuepf
haesleinhuepf
installation fails
Hi @haesleinhuepf , Hi team !
I'm trying to install devbio-napari using this env_devbio.yml :
name: "devbio"
channels:
- conda-forge
- pytorch
dependencies:
- napari=0.4.19
- python=3.9
- devbio-napari=0.10.1
- pyqt
prefix: "/opt/conda/envs/devbio"
and this line conda env update -n devbio -f /tmp/env_devbio.yml
(I'm using conda but it uses the LibMambaSolver now, so it should be fine)
RUN conda env update -n devbio -f /tmp/env_devbio.yml && conda clean --all -f -y && conda env export -n "biop" && rm /tmp/env_devbio.yml:
1.496 Channels:
1.496 - conda-forge
1.496 - pytorch
1.496 - defaults
1.496 Platform: linux-64
1.496 Collecting package metadata (repodata.json): ...working... done
28.93 Solving environment: ...working... failed
144.3 Channels:
144.3 - conda-forge
144.3 - pytorch
144.3 - defaults
144.3 Platform: linux-64
144.3 Collecting package metadata (repodata.json): ...working... done
146.5 Solving environment: ...working... failed
261.4
261.4 **LibMambaUnsatisfiableError**: Encountered problems while solving:
261.4 - package napari-0.4.19-pyh9208f05_0 requires npe2 >=0.7.2, but none of the providers can be installed
261.4
261.4
261.4 Could not solve for environment specs
261.4 The following packages are incompatible
261.4 ├─ devbio-napari 0.10.1** is installable with the potential options
261.4 │ ├─ devbio-napari 0.10.1 would require
261.4 │ │ └─ npe2 <0.7.0 , which can be installed;
261.4 │ ├─ devbio-napari 0.10.1 would require
261.4 │ │ └─ __osx, which is missing on the system;
261.4 │ └─ devbio-napari 0.10.1 would require
261.4 │ └─ __win, which is missing on the system;
261.4 └─ napari 0.4.19** is not installable because it requires
261.4 └─ npe2 >=0.7.2 , which conflicts with any installable versions previously reported.
from the error message I guess it would pass on Mac and Win and fails on linux because :
261.4 │ ├─ devbio-napari 0.10.1 would require
261.4 │ │ └─ npe2 <0.7.0 , which can be installed;
and
261.4 └─ napari 0.4.19** is not installable because it requires
261.4 └─ npe2 >=0.7.2 , which conflicts with any installable versions previously reported.
I tried to :
- add the "default" to the channels (doesn't work better)
- remove the version of napari, the build works but napari doesn't start as it's complaining about qt being installed but not working (see below)
thank you in advance for your suggestions,
Best
Romain
My last working build was with napari 0.4.18. I tried to build a new one speficying napari 0.4.18 and I got the same error as above.
Please find below the output of conda list from the old working build and a newly non-working build
devbio_notworking.txt
devio_working.txt
Any suggestion is welcome ,
Cheeers
R
Hi @romainGuiet ,
what happens if you use this command from the installation instructions?
mamba create --name devbio-napari-env napari=0.4.19 python=3.9 devbio-napari pyqt -c conda-forge -c pytorch
Hi @haesleinhuepf ,
thank you for your suggestion !
I can confirm that using mamba create --name devbio-napari-env napari=0.4.19 python=3.9 devbio-napari pyqt -c conda-forge -c pytorch -y the build pass BUT from the created environment a conda list returns
devbio-napari 0.8.1 linux_h41d4057_0 conda-forge
If I specify devbio-napari=0.10.1 , so the line become :
mamba create --name devbio napari=0.4.19 python=3.9 devbio-napari=0.10.1 pyqt -c conda-forge -c pytorch -y
it returns the same error as mamba env create -n devbio -f /tmp/env_devbio.yml with env_devbio.yml
name: "devbio"
channels:
- conda-forge
- pytorch
dependencies:
- napari=0.4.19
- python=3.9
- devbio-napari=0.10.1
- pyqt
prefix: "/opt/conda/envs/devbio"
Best,
Romain
Ok, then one more try: Can you take the environment where there is devbio-napari 0.8 installed and install 0.10 using pip?
Thanks for your time!
Edit: When comparing the conda package of devbio-napari between 0.8.1 and 0.10.1 I suspect there is a thing for linux missing, but my skills are very limited in this context. Maybe, @goanpeca or @jaimergp can help in making the conda receipe install on linux?
Via the pip install it manages to build! Please find the conda list returns below:
# packages in environment at /opt/conda/envs/devbio:
#
# Name Version Build Channel
_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 2_gnu conda-forge
aiofiles 22.1.0 pyhd8ed1ab_0 conda-forge
aiosqlite 0.20.0 pyhd8ed1ab_0 conda-forge
alabaster 0.7.16 pyhd8ed1ab_0 conda-forge
alsa-lib 1.2.12 h4ab18f5_0 conda-forge
annotated-types 0.7.0 pyhd8ed1ab_0 conda-forge
anyio 3.7.1 pyhd8ed1ab_0 conda-forge
aom 3.9.1 hac33072_0 conda-forge
apoc-backend 0.12.0 pyhd8ed1ab_0 conda-forge
app-model 0.2.8 pyhd8ed1ab_0 conda-forge
appdirs 1.4.4 pyh9f0ad1d_0 conda-forge
argon2-cffi 23.1.0 pyhd8ed1ab_0 conda-forge
argon2-cffi-bindings 21.2.0 py39h8cd3c5a_5 conda-forge
arrow 1.3.0 pyhd8ed1ab_0 conda-forge
asciitree 0.3.3 py_2 conda-forge
asttokens 2.4.1 pyhd8ed1ab_0 conda-forge
attr 2.5.1 h166bdaf_1 conda-forge
attrs 24.2.0 pyh71513ae_0 conda-forge
autopep8 2.3.1 pyhd8ed1ab_0 conda-forge
babel 2.14.0 pyhd8ed1ab_0 conda-forge
beautifulsoup4 4.12.3 pyha770c72_0 conda-forge
bleach 6.1.0 pyhd8ed1ab_0 conda-forge
blosc 1.21.6 hef167b5_0 conda-forge
brotli 1.1.0 hb9d3cd8_2 conda-forge
brotli-bin 1.1.0 hb9d3cd8_2 conda-forge
brotli-python 1.1.0 py39hf88036b_2 conda-forge
brunsli 0.1 h9c3ff4c_0 conda-forge
bzip2 1.0.8 h4bc722e_7 conda-forge
c-ares 1.34.1 heb4867d_0 conda-forge
c-blosc2 2.15.1 hc57e6cf_0 conda-forge
ca-certificates 2024.8.30 hbcca054_0 conda-forge
cached-property 1.5.2 hd8ed1ab_1 conda-forge
cached_property 1.5.2 pyha770c72_1 conda-forge
cachey 0.2.1 pyh9f0ad1d_0 conda-forge
cairo 1.18.0 hebfffa5_3 conda-forge
certifi 2024.8.30 pyhd8ed1ab_0 conda-forge
cffi 1.17.1 py39h15c3d72_0 conda-forge
charls 2.4.2 h59595ed_0 conda-forge
charset-normalizer 3.4.0 pyhd8ed1ab_0 conda-forge
click 8.1.7 unix_pyh707e725_0 conda-forge
click-default-group 1.2.4 pyhd8ed1ab_0 conda-forge
cloudpickle 3.0.0 pyhd8ed1ab_0 conda-forge
colorama 0.4.6 pyhd8ed1ab_0 conda-forge
comm 0.2.2 pyhd8ed1ab_0 conda-forge
contourpy 1.3.0 py39h74842e3_2 conda-forge
control 0.9.4 pyhd8ed1ab_0 conda-forge
cpython 3.9.20 py39hd8ed1ab_1 conda-forge
cycler 0.12.1 pyhd8ed1ab_0 conda-forge
cython 3.0.11 py39hde8bd2b_3 conda-forge
cytoolz 1.0.0 py39h8cd3c5a_1 conda-forge
czifile 2019.7.2 pyh9f0ad1d_0 conda-forge
dask-core 2024.8.0 pyhd8ed1ab_0 conda-forge
dav1d 1.2.1 hd590300_0 conda-forge
dbus 1.13.6 h5008d03_3 conda-forge
debugpy 1.8.7 py39hf88036b_0 conda-forge
decorator 5.1.1 pyhd8ed1ab_0 conda-forge
defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge
deprecated 1.2.14 pyh1a96a4e_0 conda-forge
devbio-napari 0.10.1 pypi_0 pypi
docstring_parser 0.16 pyhd8ed1ab_0 conda-forge
docutils 0.17.1 pypi_0 pypi
eigen 3.4.0 h00ab1b0_0 conda-forge
entrypoints 0.4 pyhd8ed1ab_0 conda-forge
exceptiongroup 1.2.2 pyhd8ed1ab_0 conda-forge
executing 2.1.0 pyhd8ed1ab_0 conda-forge
expat 2.6.3 h5888daf_0 conda-forge
fasteners 0.17.3 pyhd8ed1ab_0 conda-forge
ffmpeg 7.1.0 gpl_he2fd91e_701 conda-forge
fftw 3.3.10 nompi_hf1063bd_110 conda-forge
finesse 3.0a28 py39hbb88e08_0 conda-forge
flexcache 0.3 pyhd8ed1ab_0 conda-forge
flexparser 0.3.1 pyhd8ed1ab_0 conda-forge
font-ttf-dejavu-sans-mono 2.37 hab24e00_0 conda-forge
font-ttf-inconsolata 3.000 h77eed37_0 conda-forge
font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge
font-ttf-ubuntu 0.83 h77eed37_3 conda-forge
fontconfig 2.14.2 h14ed4e7_0 conda-forge
fonts-conda-ecosystem 1 0 conda-forge
fonts-conda-forge 1 0 conda-forge
fonttools 4.54.1 py39h8cd3c5a_0 conda-forge
fqdn 1.5.1 pyhd8ed1ab_0 conda-forge
freetype 2.12.1 h267a509_2 conda-forge
freetype-py 2.5.1 pyhd8ed1ab_0 conda-forge
fribidi 1.0.10 h36c2ea0_0 conda-forge
fsspec 2024.9.0 pyhff2d567_0 conda-forge
funcsigs 1.0.2 py_3 conda-forge
gettext 0.22.5 he02047a_3 conda-forge
gettext-tools 0.22.5 he02047a_3 conda-forge
giflib 5.2.2 hd590300_0 conda-forge
glib 2.82.1 h2ff4ddf_0 conda-forge
glib-tools 2.82.1 h4833e2c_0 conda-forge
gmp 6.3.0 hac33072_2 conda-forge
gmpy2 2.1.5 py39h7196dd7_2 conda-forge
graphite2 1.3.13 h59595ed_1003 conda-forge
gst-plugins-base 1.24.7 h0a52356_0 conda-forge
gstreamer 1.24.7 hf3bb09a_0 conda-forge
h2 4.1.0 pyhd8ed1ab_0 conda-forge
h5py 3.11.0 nompi_py39h24b94d4_102 conda-forge
harfbuzz 9.0.0 hda332d3_1 conda-forge
hdbscan 0.8.38.post2 py39hf3d9206_0 conda-forge
hdf5 1.14.3 nompi_hdf9ad27_105 conda-forge
heapdict 1.0.1 pyhd8ed1ab_1 conda-forge
hpack 4.0.0 pyh9f0ad1d_0 conda-forge
hsluv 5.0.4 pyhd8ed1ab_0 conda-forge
hyperframe 6.0.1 pyhd8ed1ab_0 conda-forge
icu 75.1 he02047a_0 conda-forge
idna 3.10 pyhd8ed1ab_0 conda-forge
imagecodecs 2024.6.1 py39h1a335b5_5 conda-forge
imagecodecs-lite 2019.12.3 py39hd92a3bb_8 conda-forge
imageio 2.35.1 pyh12aca89_0 conda-forge
imageio-ffmpeg 0.5.1 pyhd8ed1ab_0 conda-forge
imagesize 1.4.1 pyhd8ed1ab_0 conda-forge
importlib-metadata 8.5.0 pyha770c72_0 conda-forge
importlib-resources 6.4.5 pyhd8ed1ab_0 conda-forge
importlib_metadata 8.5.0 hd8ed1ab_0 conda-forge
importlib_resources 6.4.5 pyhd8ed1ab_0 conda-forge
in-n-out 0.2.1 pyhd8ed1ab_0 conda-forge
iniconfig 2.0.0 pyhd8ed1ab_0 conda-forge
ipycanvas 0.13.3 pyhd8ed1ab_0 conda-forge
ipyevents 2.0.2 pyhd8ed1ab_0 conda-forge
ipykernel 6.29.5 pyh3099207_0 conda-forge
ipympl 0.9.4 pyhd8ed1ab_0 conda-forge
ipython 8.18.1 pyh707e725_3 conda-forge
ipython_genutils 0.2.0 pyhd8ed1ab_1 conda-forge
ipywidgets 8.1.5 pyhd8ed1ab_0 conda-forge
isoduration 20.11.0 pyhd8ed1ab_0 conda-forge
jedi 0.19.1 pyhd8ed1ab_0 conda-forge
jinja2 3.1.4 pyhd8ed1ab_0 conda-forge
joblib 1.4.2 pyhd8ed1ab_0 conda-forge
json5 0.9.25 pyhd8ed1ab_0 conda-forge
jsonpointer 3.0.0 py39hf3d152e_1 conda-forge
jsonschema 4.23.0 pyhd8ed1ab_0 conda-forge
jsonschema-specifications 2024.10.1 pyhd8ed1ab_0 conda-forge
jsonschema-with-format-nongpl 4.23.0 hd8ed1ab_0 conda-forge
jupyter 1.1.1 pyhd8ed1ab_0 conda-forge
jupyter_client 7.4.9 pyhd8ed1ab_0 conda-forge
jupyter_console 6.6.3 pyhd8ed1ab_0 conda-forge
jupyter_core 5.7.2 pyh31011fe_1 conda-forge
jupyter_events 0.10.0 pyhd8ed1ab_0 conda-forge
jupyter_server 1.24.0 pyhd8ed1ab_0 conda-forge
jupyter_server_fileid 0.9.2 pyhd8ed1ab_0 conda-forge
jupyter_server_ydoc 0.8.0 pyhd8ed1ab_0 conda-forge
jupyter_ydoc 0.2.4 pyhd8ed1ab_0 conda-forge
jupyterlab 3.6.8 pyhd8ed1ab_0 conda-forge
jupyterlab_pygments 0.3.0 pyhd8ed1ab_0 conda-forge
jupyterlab_server 2.27.3 pyhd8ed1ab_0 conda-forge
jupyterlab_widgets 3.0.13 pyhd8ed1ab_0 conda-forge
jupytext 1.16.4 pyh80e38bb_0 conda-forge
jxrlib 1.1 hd590300_3 conda-forge
keyutils 1.6.1 h166bdaf_0 conda-forge
kiwisolver 1.4.7 py39h74842e3_0 conda-forge
krb5 1.21.3 h659f571_0 conda-forge
lame 3.100 h166bdaf_1003 conda-forge
lazy-loader 0.4 pyhd8ed1ab_1 conda-forge
lazy_loader 0.4 pyhd8ed1ab_1 conda-forge
lcms2 2.16 hb7c19ff_0 conda-forge
ld_impl_linux-64 2.43 h712a8e2_1 conda-forge
lerc 4.0.0 h27087fc_0 conda-forge
libabseil 20240722.0 cxx17_h5888daf_1 conda-forge
libaec 1.1.3 h59595ed_0 conda-forge
libasprintf 0.22.5 he8f35ee_3 conda-forge
libasprintf-devel 0.22.5 he8f35ee_3 conda-forge
libass 0.17.3 h1dc1e6a_0 conda-forge
libavif16 1.1.1 h104a339_1 conda-forge
libblas 3.9.0 24_linux64_openblas conda-forge
libbrotlicommon 1.1.0 hb9d3cd8_2 conda-forge
libbrotlidec 1.1.0 hb9d3cd8_2 conda-forge
libbrotlienc 1.1.0 hb9d3cd8_2 conda-forge
libcap 2.69 h0f662aa_0 conda-forge
libcblas 3.9.0 24_linux64_openblas conda-forge
libclang-cpp15 15.0.7 default_h127d8a8_5 conda-forge
libclang13 19.1.1 default_h9c6a7e4_0 conda-forge
libcups 2.3.3 h4637d8d_4 conda-forge
libcurl 8.10.1 hbbe4b11_0 conda-forge
libdeflate 1.22 hb9d3cd8_0 conda-forge
libdrm 2.4.123 hb9d3cd8_0 conda-forge
libedit 3.1.20191231 he28a2e2_2 conda-forge
libegl 1.7.0 ha4b6fd6_1 conda-forge
libev 4.33 hd590300_2 conda-forge
libevent 2.1.12 hf998b51_1 conda-forge
libexpat 2.6.3 h5888daf_0 conda-forge
libffi 3.4.2 h7f98852_5 conda-forge
libflac 1.4.3 h59595ed_0 conda-forge
libgcc 14.1.0 h77fa898_1 conda-forge
libgcc-ng 14.1.0 h69a702a_1 conda-forge
libgcrypt 1.11.0 h4ab18f5_1 conda-forge
libgettextpo 0.22.5 he02047a_3 conda-forge
libgettextpo-devel 0.22.5 he02047a_3 conda-forge
libgfortran 14.1.0 h69a702a_1 conda-forge
libgfortran-ng 14.1.0 h69a702a_1 conda-forge
libgfortran5 14.1.0 hc5f4f2c_1 conda-forge
libgl 1.7.0 ha4b6fd6_1 conda-forge
libglib 2.82.1 h2ff4ddf_0 conda-forge
libglvnd 1.7.0 ha4b6fd6_1 conda-forge
libglx 1.7.0 ha4b6fd6_1 conda-forge
libgomp 14.1.0 h77fa898_1 conda-forge
libgpg-error 1.50 h4f305b6_0 conda-forge
libhwloc 2.11.1 default_hecaa2ac_1000 conda-forge
libhwy 1.1.0 h00ab1b0_0 conda-forge
libiconv 1.17 hd590300_2 conda-forge
libitk 5.4.0 h5de25d7_3 conda-forge
libjpeg-turbo 3.0.0 hd590300_1 conda-forge
libjxl 0.11.0 hdb8da77_1 conda-forge
liblapack 3.9.0 24_linux64_openblas conda-forge
libllvm14 14.0.6 hcd5def8_4 conda-forge
libllvm15 15.0.7 hb3ce162_4 conda-forge
libllvm19 19.1.1 ha7bfdaf_0 conda-forge
libnghttp2 1.58.0 h47da74e_1 conda-forge
libnsl 2.0.1 hd590300_0 conda-forge
libogg 1.3.5 h4ab18f5_0 conda-forge
libopenblas 0.3.27 pthreads_hac2b453_1 conda-forge
libopenvino 2024.4.0 hac27bb2_1 conda-forge
libopenvino-auto-batch-plugin 2024.4.0 h4d9b6c2_1 conda-forge
libopenvino-auto-plugin 2024.4.0 h4d9b6c2_1 conda-forge
libopenvino-hetero-plugin 2024.4.0 h3f63f65_1 conda-forge
libopenvino-intel-cpu-plugin 2024.4.0 hac27bb2_1 conda-forge
libopenvino-intel-gpu-plugin 2024.4.0 hac27bb2_1 conda-forge
libopenvino-intel-npu-plugin 2024.4.0 hac27bb2_1 conda-forge
libopenvino-ir-frontend 2024.4.0 h3f63f65_1 conda-forge
libopenvino-onnx-frontend 2024.4.0 he882d9a_1 conda-forge
libopenvino-paddle-frontend 2024.4.0 he882d9a_1 conda-forge
libopenvino-pytorch-frontend 2024.4.0 h5888daf_1 conda-forge
libopenvino-tensorflow-frontend 2024.4.0 h9718a47_1 conda-forge
libopenvino-tensorflow-lite-frontend 2024.4.0 h5888daf_1 conda-forge
libopus 1.3.1 h7f98852_1 conda-forge
libpciaccess 0.18 hd590300_0 conda-forge
libpng 1.6.44 hadc24fc_0 conda-forge
libpq 16.4 h2d7952a_2 conda-forge
libprotobuf 5.27.5 h5b01275_2 conda-forge
libsndfile 1.2.2 hc60ed4a_1 conda-forge
libsodium 1.0.20 h4ab18f5_0 conda-forge
libsqlite 3.46.1 hadc24fc_0 conda-forge
libssh2 1.11.0 h0841786_0 conda-forge
libstdcxx 14.1.0 hc0a3c3a_1 conda-forge
libstdcxx-ng 14.1.0 h4852527_1 conda-forge
libsystemd0 256.7 h2774228_0 conda-forge
libtiff 4.7.0 he137b08_1 conda-forge
libuuid 2.38.1 h0b41bf4_0 conda-forge
libva 2.22.0 h8a09558_1 conda-forge
libvorbis 1.3.7 h9c3ff4c_0 conda-forge
libvpx 1.14.1 hac33072_0 conda-forge
libwebp-base 1.4.0 hd590300_0 conda-forge
libxcb 1.17.0 h8a09558_0 conda-forge
libxcrypt 4.4.36 hd590300_1 conda-forge
libxkbcommon 1.7.0 h2c5496b_1 conda-forge
libxml2 2.12.7 he7c6b58_4 conda-forge
libzlib 1.3.1 hb9d3cd8_2 conda-forge
libzopfli 1.0.3 h9c3ff4c_0 conda-forge
llvmlite 0.43.0 py39hf8b6b1a_1 conda-forge
locket 1.0.0 pyhd8ed1ab_0 conda-forge
loguru 0.7.2 py39hf3d152e_2 conda-forge
lz4-c 1.9.4 hcb278e6_0 conda-forge
magicgui 0.8.3 pyhd8ed1ab_0 conda-forge
mako 1.3.5 pyhd8ed1ab_0 conda-forge
markdown-it-py 3.0.0 pyhd8ed1ab_0 conda-forge
markupsafe 3.0.1 py39h9399b63_1 conda-forge
matplotlib-base 3.9.2 py39h16632d1_1 conda-forge
matplotlib-inline 0.1.7 pyhd8ed1ab_0 conda-forge
mdit-py-plugins 0.4.2 pyhd8ed1ab_0 conda-forge
mdurl 0.1.2 pyhd8ed1ab_0 conda-forge
metis 5.1.0 hd0bcaf9_1007 conda-forge
mistune 3.0.2 pyhd8ed1ab_0 conda-forge
more-itertools 10.5.0 pyhd8ed1ab_0 conda-forge
mpc 1.3.1 h24ddda3_1 conda-forge
mpfr 4.2.1 h90cbb55_3 conda-forge
mpg123 1.32.6 h59595ed_0 conda-forge
mpmath 1.3.0 pyhd8ed1ab_0 conda-forge
msgpack-python 1.1.0 py39h74842e3_0 conda-forge
munkres 1.1.4 pyh9f0ad1d_0 conda-forge
mysql-common 9.0.1 h266115a_1 conda-forge
mysql-libs 9.0.1 he0572af_1 conda-forge
napari 0.4.18 pypi_0 pypi
napari-3d-ortho-viewer 0.1.5 pyhd8ed1ab_0 conda-forge
napari-accelerated-pixel-and-object-classification 0.14.1 pyh9208f05_0 conda-forge
napari-animation 0.0.7 pypi_0 pypi
napari-assistant 0.4.8 pyha07c04f_0 conda-forge
napari-blob-detection 0.0.2 pyhd8ed1ab_0 conda-forge
napari-brightness-contrast 0.1.8 pyhd8ed1ab_0 conda-forge
napari-clusters-plotter 0.8.0 pypi_0 pypi
napari-console 0.1.0 pyh73487a3_0 conda-forge
napari-crop 0.1.9 pyhd8ed1ab_0 conda-forge
napari-curtain 0.1.1 pyhd8ed1ab_0 conda-forge
napari-czifile2 0.2.7 pyhd8ed1ab_0 conda-forge
napari-folder-browser 0.1.3 pyhd8ed1ab_0 conda-forge
napari-layer-details-display 0.1.5 pyhd8ed1ab_0 conda-forge
napari-mouse-controls 0.1.3 pyhd8ed1ab_0 conda-forge
napari-plot-profile 0.2.2 pyhd8ed1ab_0 conda-forge
napari-plugin-engine 0.2.0 pyhd8ed1ab_2 conda-forge
napari-plugin-manager 0.1.3 pypi_0 pypi
napari-plugin-search 0.1.3 pyhd8ed1ab_0 conda-forge
napari-pyclesperanto-assistant 0.22.1 pyhd8ed1ab_0 conda-forge
napari-pystackreg 0.1.4 pyhd8ed1ab_0 conda-forge
napari-roi 0.1.8 pyhd8ed1ab_0 conda-forge
napari-segment-blobs-and-things-with-membranes 0.3.11 pyha07c04f_0 conda-forge
napari-simpleitk-image-processing 0.4.8 pyhd0adb26_0 conda-forge
napari-skimage-regionprops 0.10.1 pyhd8ed1ab_0 conda-forge
napari-svg 0.2.0 pyhd8ed1ab_0 conda-forge
napari-tabu 0.1.5 pyhd8ed1ab_0 conda-forge
napari-time-slicer 0.5.0 pyhd8ed1ab_0 conda-forge
napari-tools-menu 0.1.19 pyhd8ed1ab_0 conda-forge
napari-workflow-inspector 0.2.2 pyhd8ed1ab_0 conda-forge
napari-workflow-optimizer 0.1.4 pyhd8ed1ab_0 conda-forge
napari-workflows 0.2.10 pyhd8ed1ab_0 conda-forge
nbclassic 1.1.0 pyhd8ed1ab_0 conda-forge
nbclient 0.10.0 pyhd8ed1ab_0 conda-forge
nbconvert-core 7.16.4 pyhd8ed1ab_1 conda-forge
nbformat 5.10.4 pyhd8ed1ab_0 conda-forge
ncurses 6.5 he02047a_1 conda-forge
nest-asyncio 1.6.0 pyhd8ed1ab_0 conda-forge
networkx 3.2.1 pyhd8ed1ab_0 conda-forge
notebook 6.5.7 pyha770c72_0 conda-forge
notebook-shim 0.2.4 pyhd8ed1ab_0 conda-forge
npe2 0.6.2 pypi_0 pypi
nspr 4.35 h27087fc_0 conda-forge
nss 3.105 hd34e28f_0 conda-forge
numba 0.60.0 py39h0320e7d_0 conda-forge
numcodecs 0.12.1 py39h84cc369_1 conda-forge
numpy 1.23.5 pypi_0 pypi
numpydoc 1.5.0 pypi_0 pypi
ocl-icd 2.3.2 hd590300_1 conda-forge
ocl-icd-system 1.0.0 1 conda-forge
openh264 2.4.1 h59595ed_0 conda-forge
openjpeg 2.5.2 h488ebb8_0 conda-forge
openssl 3.3.2 hb9d3cd8_0 conda-forge
packaging 24.1 pyhd8ed1ab_0 conda-forge
pandas 2.2.3 py39h3b40f6f_1 conda-forge
pandocfilters 1.5.0 pyhd8ed1ab_0 conda-forge
parso 0.8.4 pyhd8ed1ab_0 conda-forge
partd 1.4.2 pyhd8ed1ab_0 conda-forge
pcre2 10.44 hba22ea6_2 conda-forge
pexpect 4.9.0 pyhd8ed1ab_0 conda-forge
pickleshare 0.7.5 py_1003 conda-forge
pillow 10.4.0 py39h648eaa6_1 conda-forge
pint 0.24.3 pyhd8ed1ab_0 conda-forge
pip 24.2 pyh8b19718_1 conda-forge
pixman 0.43.2 h59595ed_0 conda-forge
pkgutil-resolve-name 1.3.10 pyhd8ed1ab_1 conda-forge
platformdirs 4.3.6 pyhd8ed1ab_0 conda-forge
platymatch 0.0.3 pyhd8ed1ab_0 conda-forge
pluggy 1.5.0 pyhd8ed1ab_0 conda-forge
ply 3.11 pyhd8ed1ab_2 conda-forge
pooch 1.8.2 pyhd8ed1ab_0 conda-forge
prometheus_client 0.21.0 pyhd8ed1ab_0 conda-forge
prompt-toolkit 3.0.48 pyha770c72_0 conda-forge
prompt_toolkit 3.0.48 hd8ed1ab_0 conda-forge
psutil 6.0.0 py39h8cd3c5a_1 conda-forge
psygnal 0.11.1 pyhd8ed1ab_0 conda-forge
pthread-stubs 0.4 hb9d3cd8_1002 conda-forge
ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge
pugixml 1.14 h59595ed_0 conda-forge
pulseaudio-client 17.0 hb77b528_0 conda-forge
pure_eval 0.2.3 pyhd8ed1ab_0 conda-forge
pyclesperanto-prototype 0.24.4 pyhd8ed1ab_0 conda-forge
pycodestyle 2.12.1 pyhd8ed1ab_0 conda-forge
pyconify 0.1.6 pyhd8ed1ab_0 conda-forge
pycparser 2.22 pyhd8ed1ab_0 conda-forge
pydantic 1.10.18 pypi_0 pypi
pydantic-compat 0.1.2 pyhd8ed1ab_0 conda-forge
pydantic-core 2.23.4 py39he612d8f_0 conda-forge
pygments 2.18.0 pyhd8ed1ab_0 conda-forge
pynndescent 0.5.13 pyhff2d567_0 conda-forge
pyopencl 2024.2.7 py39h85c637f_0 conda-forge
pyopengl 3.1.6 pyhd8ed1ab_1 conda-forge
pyparsing 3.1.4 pyhd8ed1ab_0 conda-forge
pyperclip 1.9.0 pyha804496_0 conda-forge
pyproject_hooks 1.2.0 pyh7850678_0 conda-forge
pyqt 5.15.9 py39h52134e7_5 conda-forge
pyqt5-sip 12.12.2 py39h3d6467e_5 conda-forge
pyqtgraph 0.13.7 pyhd8ed1ab_0 conda-forge
pysocks 1.7.1 pyha2e5f31_6 conda-forge
pyspellchecker 0.8.0 pyhd8ed1ab_0 conda-forge
pystackreg 0.2.8 py39h3b40f6f_2 conda-forge
pytest 8.3.3 pyhd8ed1ab_0 conda-forge
python 3.9.20 h13acc7a_1_cpython conda-forge
python-build 1.2.2.post1 pyhff2d567_0 conda-forge
python-dateutil 2.9.0 pyhd8ed1ab_0 conda-forge
python-fastjsonschema 2.20.0 pyhd8ed1ab_0 conda-forge
python-json-logger 2.0.7 pyhd8ed1ab_0 conda-forge
python-tzdata 2024.2 pyhd8ed1ab_0 conda-forge
python_abi 3.9 5_cp39 conda-forge
pytomlpp 1.0.13 pypi_0 pypi
pytools 2024.1.14 pyhd8ed1ab_0 conda-forge
pytz 2024.1 pyhd8ed1ab_0 conda-forge
pywavelets 1.6.0 py39hd92a3bb_0 conda-forge
pyyaml 6.0.2 py39h8cd3c5a_1 conda-forge
pyzmq 26.2.0 py39h4e4fb57_2 conda-forge
qhull 2020.2 h434a139_5 conda-forge
qt-main 5.15.8 h3155989_26 conda-forge
qtconsole-base 5.6.0 pyha770c72_0 conda-forge
qtpy 2.4.1 pyhd8ed1ab_0 conda-forge
quantiphy 2.20 pyhd8ed1ab_1 conda-forge
rav1e 0.6.6 he8a937b_2 conda-forge
readline 8.2 h8228510_1 conda-forge
redlionfish 0.9 py39hf3d152e_3 conda-forge
referencing 0.35.1 pyhd8ed1ab_0 conda-forge
reikna 0.8.0 pyhd8ed1ab_0 conda-forge
requests 2.32.3 pyhd8ed1ab_0 conda-forge
rfc3339-validator 0.1.4 pyhd8ed1ab_0 conda-forge
rfc3986-validator 0.1.1 pyh9f0ad1d_0 conda-forge
rich 13.9.2 pyhd8ed1ab_0 conda-forge
rpds-py 0.20.0 py39he612d8f_1 conda-forge
scikit-image 0.24.0 py39h5114956_2 conda-forge
scikit-learn 1.5.2 py39h4b7350c_1 conda-forge
scipy 1.13.1 py39haf93ffa_0 conda-forge
seaborn 0.13.2 pypi_0 pypi
send2trash 1.8.3 pyh0d859eb_0 conda-forge
setuptools 75.1.0 pyhd8ed1ab_0 conda-forge
shellingham 1.5.4 pyhd8ed1ab_0 conda-forge
simpleitk 2.4.0 py39hcd839a5_1 conda-forge
sip 6.7.12 py39h3d6467e_0 conda-forge
siphash24 1.6 py39hcd6043d_1 conda-forge
six 1.16.0 pyh6c4a22f_0 conda-forge
sly 0.4 pyhd8ed1ab_0 conda-forge
slycot 0.5.4 py39hfe520f8_4 conda-forge
snappy 1.2.1 ha2e4443_0 conda-forge
sniffio 1.3.1 pyhd8ed1ab_0 conda-forge
snowballstemmer 2.2.0 pyhd8ed1ab_0 conda-forge
soupsieve 2.5 pyhd8ed1ab_1 conda-forge
sphinx 4.5.0 pypi_0 pypi
sphinxcontrib-applehelp 2.0.0 pyhd8ed1ab_0 conda-forge
sphinxcontrib-devhelp 2.0.0 pyhd8ed1ab_0 conda-forge
sphinxcontrib-htmlhelp 2.1.0 pyhd8ed1ab_0 conda-forge
sphinxcontrib-jsmath 1.0.1 pyhd8ed1ab_0 conda-forge
sphinxcontrib-qthelp 2.0.0 pyhd8ed1ab_0 conda-forge
sphinxcontrib-serializinghtml 1.1.10 pyhd8ed1ab_0 conda-forge
stack_data 0.6.2 pyhd8ed1ab_0 conda-forge
stackview 0.11.2 pyhd8ed1ab_0 conda-forge
suitesparse 7.8.2 hb42a789_0 conda-forge
superqt 0.6.7 pyh9208f05_0 conda-forge
svt-av1 2.2.1 h5888daf_0 conda-forge
sympy 1.13.3 pyh2585a3b_104 conda-forge
tabulate 0.9.0 pyhd8ed1ab_1 conda-forge
tbb 2021.13.0 h84d6215_0 conda-forge
terminado 0.18.1 pyh0d859eb_0 conda-forge
the-segmentation-game 0.2.0 pyhd8ed1ab_0 conda-forge
threadpoolctl 3.5.0 pyhc1e730c_0 conda-forge
tifffile 2024.6.18 pyhd8ed1ab_0 conda-forge
tinycss2 1.3.0 pyhd8ed1ab_0 conda-forge
tk 8.6.13 noxft_h4845f30_101 conda-forge
toml 0.10.2 pyhd8ed1ab_0 conda-forge
tomli 2.0.2 pyhd8ed1ab_0 conda-forge
tomli-w 1.1.0 pyhd8ed1ab_0 conda-forge
toolz 1.0.0 pyhd8ed1ab_0 conda-forge
tornado 6.4.1 py39h8cd3c5a_1 conda-forge
tqdm 4.66.5 pyhd8ed1ab_0 conda-forge
traitlets 5.14.3 pyhd8ed1ab_0 conda-forge
transforms3d 0.4.2 pyhd8ed1ab_0 conda-forge
typer 0.12.5 pyhd8ed1ab_0 conda-forge
typer-slim 0.12.5 pyhd8ed1ab_0 conda-forge
typer-slim-standard 0.12.5 hd8ed1ab_0 conda-forge
types-python-dateutil 2.9.0.20241003 pyhff2d567_0 conda-forge
typing-extensions 4.12.2 hd8ed1ab_0 conda-forge
typing_extensions 4.12.2 pyha770c72_0 conda-forge
tzdata 2024b hc8b5060_0 conda-forge
umap-learn 0.5.6 py39hf3d152e_1 conda-forge
unicodedata2 15.1.0 py39hd1e30aa_0 conda-forge
uri-template 1.3.0 pyhd8ed1ab_0 conda-forge
urllib3 2.2.3 pyhd8ed1ab_0 conda-forge
vispy 0.12.2 pypi_0 pypi
wayland 1.23.1 h3e06ad9_0 conda-forge
wayland-protocols 1.37 hd8ed1ab_0 conda-forge
wcwidth 0.2.13 pyhd8ed1ab_0 conda-forge
webcolors 24.8.0 pyhd8ed1ab_0 conda-forge
webencodings 0.5.1 pyhd8ed1ab_2 conda-forge
websocket-client 1.8.0 pyhd8ed1ab_0 conda-forge
wheel 0.44.0 pyhd8ed1ab_0 conda-forge
widgetsnbextension 4.0.13 pyhd8ed1ab_0 conda-forge
wrapt 1.16.0 py39h8cd3c5a_1 conda-forge
x264 1!164.3095 h166bdaf_2 conda-forge
x265 3.5 h924138e_3 conda-forge
xcb-util 0.4.1 hb711507_2 conda-forge
xcb-util-image 0.4.0 hb711507_2 conda-forge
xcb-util-keysyms 0.4.1 hb711507_0 conda-forge
xcb-util-renderutil 0.3.10 hb711507_0 conda-forge
xcb-util-wm 0.4.2 hb711507_0 conda-forge
xclip 0.13 h4ab18f5_3 conda-forge
xkeyboard-config 2.43 hb9d3cd8_0 conda-forge
xorg-libice 1.1.1 hb9d3cd8_1 conda-forge
xorg-libsm 1.2.4 he73a12e_1 conda-forge
xorg-libx11 1.8.10 h4f16b4b_0 conda-forge
xorg-libxau 1.0.11 hb9d3cd8_1 conda-forge
xorg-libxdmcp 1.1.5 hb9d3cd8_0 conda-forge
xorg-libxext 1.3.6 hb9d3cd8_0 conda-forge
xorg-libxfixes 6.0.1 hb9d3cd8_0 conda-forge
xorg-libxmu 1.2.1 hb9d3cd8_1 conda-forge
xorg-libxrender 0.9.11 hb9d3cd8_1 conda-forge
xorg-libxt 1.3.0 hb9d3cd8_2 conda-forge
xorg-libxxf86vm 1.1.5 hb9d3cd8_3 conda-forge
xorg-xf86vidmodeproto 2.3.1 hb9d3cd8_1003 conda-forge
xorg-xorgproto 2024.1 hb9d3cd8_1 conda-forge
xsel 1.2.1 hb9d3cd8_5 conda-forge
xz 5.2.6 h166bdaf_0 conda-forge
y-py 0.5.9 py39h50f1755_0 conda-forge
yaml 0.2.5 h7f98852_2 conda-forge
ypy-websocket 0.8.2 pyhd8ed1ab_0 conda-forge
zarr 2.18.2 pyhd8ed1ab_0 conda-forge
zeromq 4.3.5 h3b0a872_6 conda-forge
zfp 1.0.1 h5888daf_2 conda-forge
zipp 3.20.2 pyhd8ed1ab_0 conda-forge
zlib 1.3.1 hb9d3cd8_2 conda-forge
zlib-ng 2.2.2 h5888daf_0 conda-forge
zstandard 0.23.0 py39h08a7858_1 conda-forge
zstd 1.5.6 ha6fb4c9_0 conda-forge
Now napari doesn't start I get an error :
ARNING: QStandardPaths: XDG_RUNTIME_DIR not set, defaulting to '/tmp/runtime-biop'
08:49:29 : WARNING : MainThread : QStandardPaths: XDG_RUNTIME_DIR not set, defaulting to '/tmp/runtime-biop'
WARNING: QXcbIntegration: Cannot create platform OpenGL context, neither GLX nor EGL are enabled
08:49:29 : WARNING : MainThread : QXcbIntegration: Cannot create platform OpenGL context, neither GLX nor EGL are enabled
WARNING: QXcbIntegration: Cannot create platform offscreen surface, neither GLX nor EGL are enabled
08:49:29 : WARNING : MainThread : QXcbIntegration: Cannot create platform offscreen surface, neither GLX nor EGL are enabled
WARNING: QXcbIntegration: Cannot create platform OpenGL context, neither GLX nor EGL are enabled
08:49:32 : WARNING : MainThread : QXcbIntegration: Cannot create platform OpenGL context, neither GLX nor EGL are enabled
WARNING: QXcbIntegration: Cannot create platform OpenGL context, neither GLX nor EGL are enabled
08:49:32 : WARNING : MainThread : QXcbIntegration: Cannot create platform OpenGL context, neither GLX nor EGL are enabled
WARNING: composeAndFlush: QOpenGLContext creation failed
but tha'ts a different story, which is linked to napari itself 😅
Shall we leave this issue open until it builds "normally" (without pip install second step)
Cheers,
R
Shall we leave this issue open until it builds "normally" (without pip install second step)
Yes, please. We need to fix the conda receipe obviously.
That kind of warning seems to originate from a headless deployment... is that a Docker container or similar? You might be lacking some of the virtual packages required.
Can you share the output of conda info in the target?
nvm this is a simple one:
- napari 0.4.19 requires
npe2>=0.7.2 - devbio 0.10 requires
npe2<0.7.0 - devbio 0.8 didn't have that npe2 pin
So if you don't specify any devbio version, then the solver will find a compatible one in the 0.8 series because the most recent ones prevent npe2 greater or equals than 0.7.0.
The questions are:
- Is the
npe2<0.7.0necessary in the 0.10 series or was it a workaround for some problem that is no longer relevant? In that case, we can repodata patch to remove the pin. - If it's necessary in the current source, is there a way the problem can be fixed so the pin can be lifted? That would involve a new PR plus a new release of the relevant projects.
Hey @jaimergp ,
thanks for the feedback! I just tried to remove the pin in the feedstock, but have this error message now in the CI:
Could not solve for environment specs
The following packages are incompatible
└─ conda-forge-ci-setup 3** is installable with the potential options
├─ conda-forge-ci-setup [3.0.10|3.0.11|...|3.9.6] would require
│ └─ python >=3.6,<3.7.0a0 , which can be installed;
├─ conda-forge-ci-setup [3.0.10|3.0.11|...|3.9.6] would require
│ └─ python >=3.7,<3.8.0a0 , which can be installed;
├─ conda-forge-ci-setup [3.0.14|3.1.0|...|3.9.6] would require
│ └─ python >=3.8,<3.9.0a0 , which can be installed;
├─ conda-forge-ci-setup [3.10.0|3.10.1|...|3.9.6] would require
│ └─ python >=3.9,<3.10.0a0 , which can be installed;
├─ conda-forge-ci-setup [3.17.1|3.18.0|...|3.34.1] would require
│ └─ python >=3.10,<3.11.0a0 , which can be installed;
└─ conda-forge-ci-setup [3.21.0|3.22.0|...|3.34.1] would require
└─ python >=3.11,<3.12.0a0 , which can be installed.
Do you have an idea how to fix this?
Thanks for your time!
https://github.com/conda-forge/devbio-napari-feedstock/pull/26 is passing now. Give me a 👍 and I'll merge @haesleinhuepf
Hey @jaimergp ,
amazing, thanks so much! I owe you something!!! 🙌
Cheers, Robert
Hi @haesleinhuepf , Hi @jaimergp ,
I finally managed to have a working napari (cf thread ) 🥳🚀
So now I can get back to try to get devbio-napari working too 🤞
I tried to clone my conda envirionment and then install devbio in it using : conda install devbio-napari==0.11.0 -c conda-forge -c pytorch but I get an error :
PackagesNotFoundError: The following packages are not available from current channels:
devbio-napari==0.11.0
It seems the conda-forge channel is still at 0.10.1 conda-forge feedstoc. Therefore, I tried to install the version 0.10.1 and I got an error (cf conda error below) which is numpy related I think.
I thought I might be luckier with pip, so I tried to install devbio-napari==0.11.0 but I also got an error ( cf pip error below)
Would you have any hint?
Thank you again for your efforts,
Cheers,
Romain
conda
conda error
Traceback (most recent call last):
File "/opt/conda/envs/devbio/bin/napari", line 6, in <module>
from napari.__main__ import main
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/__main__.py", line 18, in <module>
from napari.errors import ReaderPluginError
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/errors/__init__.py", line 1, in <module>
from napari.errors.reader_errors import (
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/errors/reader_errors.py", line 1, in <module>
from napari.types import PathLike
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/types.py", line 191, in <module>
_register_types_with_magicgui()
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/types.py", line 158, in _register_types_with_magicgui
from napari.utils import _magicgui as _mgui
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/utils/__init__.py", line 2, in <module>
from napari.utils._dask_utils import resize_dask_cache
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/utils/_dask_utils.py", line 9, in <module>
import dask.array as da
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/dask/array/__init__.py", line 56, in <module>
from dask.array import backends, fft, lib, linalg, ma, overlap, random
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/dask/array/fft.py", line 11, in <module>
import scipy.fftpack
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/fftpack/__init__.py", line 93, in <module>
from ._basic import *
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/fftpack/_basic.py", line 8, in <module>
from scipy.fft import _pocketfft
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/fft/__init__.py", line 91, in <module>
from ._fftlog import fht, ifht, fhtoffset
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/fft/_fftlog.py", line 10, in <module>
from ._fftlog_backend import fhtoffset
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/fft/_fftlog_backend.py", line 4, in <module>
from ..special import loggamma, poch
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/special/__init__.py", line 826, in <module>
from . import _basic
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/special/_basic.py", line 22, in <module>
from ._multiufuncs import (assoc_legendre_p_all,
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/special/_multiufuncs.py", line 142, in <module>
sph_legendre_p = MultiUFunc(
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/special/_multiufuncs.py", line 41, in __init__
raise ValueError("All ufuncs must have type `numpy.ufunc`."
ValueError: All ufuncs must have type `numpy.ufunc`. Received (<ufunc 'sph_legendre_p'>, <ufunc 'sph_legendre_p'>, <ufunc 'sph_legendre_p'>)
conda list
devbio) biop@0c5464e4ca22:~$ conda list
# packages in environment at /opt/conda/envs/devbio:
#
# Name Version Build Channel
_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 2_gnu conda-forge
aiofiles 22.1.0 pyhd8ed1ab_0 conda-forge
aiosqlite 0.20.0 pyhaa4b35c_1 conda-forge
alabaster 1.0.0 pyhd8ed1ab_1 conda-forge
alsa-lib 1.2.8 h166bdaf_0 conda-forge
annotated-types 0.7.0 pyhd8ed1ab_1 conda-forge
anyio 3.7.1 pyhd8ed1ab_0 conda-forge
aom 3.5.0 h27087fc_0 conda-forge
apoc-backend 0.12.0 pyhd8ed1ab_1 conda-forge
app-model 0.3.1 pypi_0 pypi
appdirs 1.4.4 pyhd8ed1ab_1 conda-forge
argon2-cffi 23.1.0 pyhd8ed1ab_1 conda-forge
argon2-cffi-bindings 21.2.0 py310ha75aee5_5 conda-forge
arrow 1.3.0 pyhd8ed1ab_1 conda-forge
asciitree 0.3.3 pypi_0 pypi
asttokens 3.0.0 pyhd8ed1ab_1 conda-forge
attr 2.5.1 h166bdaf_1 conda-forge
attrs 24.3.0 pypi_0 pypi
autopep8 2.3.2 pyhd8ed1ab_0 conda-forge
babel 2.16.0 pypi_0 pypi
bcrypt 3.2.0 pypi_0 pypi
beautifulsoup4 4.10.0 pypi_0 pypi
bleach 6.2.0 pyh29332c3_4 conda-forge
bleach-with-css 6.2.0 h82add2a_4 conda-forge
blinker 1.4 pypi_0 pypi
blosc 1.21.5 h0f2a231_0 conda-forge
brotli 1.0.9 h166bdaf_9 conda-forge
brotli-bin 1.0.9 h166bdaf_9 conda-forge
brotli-python 1.0.9 py310hd8f1fbe_9 conda-forge
brunsli 0.1 h9c3ff4c_0 conda-forge
bzip2 1.0.8 h4bc722e_7 conda-forge
c-ares 1.34.4 hb9d3cd8_0 conda-forge
c-blosc2 2.12.0 hb4ffafa_0 conda-forge
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rfc3986-validator 0.1.1 pyh9f0ad1d_0 conda-forge
rich 13.9.4 pyhd8ed1ab_1 conda-forge
rpds-py 0.22.3 pypi_0 pypi
scikit-image 0.25.0 py310h5eaa309_0 conda-forge
scikit-learn 1.6.1 py310h27f47ee_0 conda-forge
scipy 1.15.1 pypi_0 pypi
seaborn 0.13.2 hd8ed1ab_3 conda-forge
seaborn-base 0.13.2 pyhd8ed1ab_3 conda-forge
secretstorage 3.3.1 pypi_0 pypi
send2trash 1.8.3 pyh0d859eb_1 conda-forge
setproctitle 1.2.2 pypi_0 pypi
setuptools 59.6.0 pypi_0 pypi
shellingham 1.5.4 pyhd8ed1ab_1 conda-forge
simpleitk 2.2.1 py310h2b9ea3a_1 conda-forge
sip 6.7.12 py310hc6cd4ac_0 conda-forge
siphash24 1.7 py310ha75aee5_0 conda-forge
six 1.17.0 pyhd8ed1ab_0 conda-forge
snappy 1.1.10 hdb0a2a9_1 conda-forge
sniffio 1.3.1 pyhd8ed1ab_1 conda-forge
snowballstemmer 2.2.0 pyhd8ed1ab_0 conda-forge
soupsieve 2.3.1 pypi_0 pypi
sphinx 8.1.3 pyhd8ed1ab_1 conda-forge
sphinxcontrib-applehelp 2.0.0 pyhd8ed1ab_1 conda-forge
sphinxcontrib-devhelp 2.0.0 pyhd8ed1ab_1 conda-forge
sphinxcontrib-htmlhelp 2.1.0 pyhd8ed1ab_1 conda-forge
sphinxcontrib-jsmath 1.0.1 pyhd8ed1ab_1 conda-forge
sphinxcontrib-qthelp 2.0.0 pyhd8ed1ab_1 conda-forge
sphinxcontrib-serializinghtml 2.0.0 pypi_0 pypi
stack_data 0.6.3 pyhd8ed1ab_1 conda-forge
stackview 0.12.0 pyhd8ed1ab_1 conda-forge
statsmodels 0.14.4 py310hf462985_0 conda-forge
superqt 0.7.1 pypi_0 pypi
svt-av1 1.4.1 hcb278e6_0 conda-forge
tabulate 0.9.0 pyhd8ed1ab_2 conda-forge
tbb 2021.9.0 hf52228f_0 conda-forge
terminado 0.18.1 pyh0d859eb_0 conda-forge
the-segmentation-game 0.2.0 pyhd8ed1ab_0 conda-forge
threadpoolctl 3.5.0 pyhc1e730c_0 conda-forge
tifffile 2025.1.10 pypi_0 pypi
tinycss2 1.4.0 pyhd8ed1ab_0 conda-forge
tk 8.6.13 noxft_h4845f30_101 conda-forge
toml 0.10.2 pyhd8ed1ab_1 conda-forge
tomli 2.2.1 pyhd8ed1ab_1 conda-forge
tomli-w 1.2.0 pyhd8ed1ab_0 conda-forge
toolz 1.0.0 pyhd8ed1ab_1 conda-forge
tornado 6.4.2 py310ha75aee5_0 conda-forge
tqdm 4.67.1 pyhd8ed1ab_1 conda-forge
traitlets 5.14.3 pyhd8ed1ab_1 conda-forge
transforms3d 0.4.2 pyhd8ed1ab_1 conda-forge
triangle 20250106 pypi_0 pypi
typer 0.15.1 pypi_0 pypi
typer-slim 0.15.2 pyh29332c3_0 conda-forge
typer-slim-standard 0.15.2 h801b22e_0 conda-forge
types-python-dateutil 2.9.0.20241206 pyhd8ed1ab_0 conda-forge
typing-extensions 4.12.2 hd8ed1ab_1 conda-forge
typing_extensions 4.12.2 pyha770c72_1 conda-forge
tzdata 2025a h78e105d_0 conda-forge
umap-learn 0.5.7 py310hff52083_1 conda-forge
unicodedata2 16.0.0 py310ha75aee5_0 conda-forge
uri-template 1.3.0 pyhd8ed1ab_1 conda-forge
urllib3 2.3.0 pyhd8ed1ab_0 conda-forge
vispy 0.14.3 py310h21d447c_1 conda-forge
wadllib 1.3.6 pypi_0 pypi
watchdog 2.1.6 pypi_0 pypi
wcwidth 0.2.13 pyhd8ed1ab_1 conda-forge
webcolors 24.11.1 pyhd8ed1ab_0 conda-forge
webencodings 0.5.1 pyhd8ed1ab_3 conda-forge
websocket-client 1.8.0 pyhd8ed1ab_1 conda-forge
wheel 0.37.1 pypi_0 pypi
widgetsnbextension 4.0.13 pyhd8ed1ab_1 conda-forge
wrapt 1.17.2 py310ha75aee5_0 conda-forge
x264 1!164.3095 h166bdaf_2 conda-forge
x265 3.5 h924138e_3 conda-forge
xcb-util 0.4.0 h516909a_0 conda-forge
xcb-util-image 0.4.0 h166bdaf_0 conda-forge
xcb-util-keysyms 0.4.0 h516909a_0 conda-forge
xcb-util-renderutil 0.3.9 h166bdaf_0 conda-forge
xcb-util-wm 0.4.1 h516909a_0 conda-forge
xdg 5.0.0 pypi_0 pypi
xkeyboard-config 2.38 h0b41bf4_0 conda-forge
xorg-fixesproto 5.0 hb9d3cd8_1003 conda-forge
xorg-kbproto 1.0.7 hb9d3cd8_1003 conda-forge
xorg-libice 1.1.2 hb9d3cd8_0 conda-forge
xorg-libsm 1.2.5 he73a12e_0 conda-forge
xorg-libx11 1.8.4 h0b41bf4_0 conda-forge
xorg-libxau 1.0.12 hb9d3cd8_0 conda-forge
xorg-libxdmcp 1.1.5 hb9d3cd8_0 conda-forge
xorg-libxext 1.3.4 h0b41bf4_2 conda-forge
xorg-libxfixes 5.0.3 h7f98852_1004 conda-forge
xorg-libxrender 0.9.10 h7f98852_1003 conda-forge
xorg-renderproto 0.11.1 hb9d3cd8_1003 conda-forge
xorg-xextproto 7.3.0 hb9d3cd8_1004 conda-forge
xorg-xproto 7.0.31 hb9d3cd8_1008 conda-forge
xz 5.6.4 hbcc6ac9_0 conda-forge
xz-gpl-tools 5.6.4 hbcc6ac9_0 conda-forge
xz-tools 5.6.4 hb9d3cd8_0 conda-forge
y-py 0.5.9 py310h4426083_0 conda-forge
yaml 0.2.5 h7f98852_2 conda-forge
ypy-websocket 0.8.2 pyhd8ed1ab_0 conda-forge
zarr 2.18.3 pypi_0 pypi
zeroconf 0.38.3 pypi_0 pypi
zeromq 4.3.5 h59595ed_1 conda-forge
zfp 1.0.1 h5888daf_2 conda-forge
zipp 3.21.0 pyhd8ed1ab_1 conda-forge
zlib 1.3.1 hb9d3cd8_2 conda-forge
zlib-ng 2.0.7 h0b41bf4_0 conda-forge
zstandard 0.19.0 py310h5764c6d_0 conda-forge
zstd 1.5.7 hb8e6e7a_1 conda-forge
pip install
Looking in indexes: https://pypi.org/simple, https://pypi.ngc.nvidia.com
167.3 Collecting devbio-napari==0.11.0
167.4 Downloading devbio_napari-0.11.0-py3-none-any.whl.metadata (11 kB)
167.4 Requirement already satisfied: napari-plugin-engine>=0.1.4 in /opt/conda/envs/devbio/lib/python3.10/site-packages (from devbio-napari==0.11.0) (0.2.0)
167.4 Requirement already satisfied: npe2 in /opt/conda/envs/devbio/lib/python3.10/site-packages (from devbio-napari==0.11.0) (0.7.7)
167.4 Requirement already satisfied: numpy>=1.21.4 in /opt/conda/envs/devbio/lib/python3.10/site-packages (from devbio-napari==0.11.0) (2.1.3)
169.1 Collecting napari-assistant>=0.4.9 (from devbio-napari==0.11.0)
169.1 Downloading napari_assistant-0.4.11-py3-none-any.whl.metadata (7.9 kB)
171.5 Collecting napari-pyclesperanto-assistant>=0.23.0 (from devbio-napari==0.11.0)
171.5 Downloading napari_pyclesperanto_assistant-0.25.0-py3-none-any.whl.metadata (12 kB)
172.7 Collecting napari-skimage-regionprops (from devbio-napari==0.11.0)
172.7 Downloading napari_skimage_regionprops-0.10.1-py3-none-any.whl.metadata (10 kB)
174.1 Collecting napari-animation (from devbio-napari==0.11.0)
174.1 Downloading napari_animation-0.0.8-py3-none-any.whl.metadata (10 kB)
175.5 Collecting PlatyMatch (from devbio-napari==0.11.0)
176.3 Downloading PlatyMatch-0.0.3-py3-none-any.whl.metadata (9.8 kB)
177.9 Collecting napari-plot-profile (from devbio-napari==0.11.0)
177.9 Downloading napari_plot_profile-0.2.2-py3-none-any.whl.metadata (5.5 kB)
179.5 Collecting napari-accelerated-pixel-and-object-classification (from devbio-napari==0.11.0)
179.5 Downloading napari_accelerated_pixel_and_object_classification-0.14.1-py3-none-any.whl.metadata (25 kB)
181.0 Collecting napari-brightness-contrast (from devbio-napari==0.11.0)
181.3 Downloading napari_brightness_contrast-0.1.8-py3-none-any.whl.metadata (4.9 kB)
182.7 Collecting napari-plugin-search (from devbio-napari==0.11.0)
182.7 Downloading napari_plugin_search-0.1.4-py3-none-any.whl.metadata (4.0 kB)
184.9 Collecting napari-segment-blobs-and-things-with-membranes (from devbio-napari==0.11.0)
184.9 Downloading napari_segment_blobs_and_things_with_membranes-0.3.12-py3-none-any.whl.metadata (10 kB)
186.5 Collecting napari-simpleitk-image-processing (from devbio-napari==0.11.0)
186.5 Downloading napari_simpleitk_image_processing-0.4.9-py3-none-any.whl.metadata (13 kB)
188.5 Collecting napari-stl-exporter (from devbio-napari==0.11.0)
188.6 Downloading napari_stl_exporter-0.1.5-py3-none-any.whl.metadata (7.9 kB)
190.2 Collecting napari-folder-browser (from devbio-napari==0.11.0)
190.2 Downloading napari_folder_browser-0.1.4-py3-none-any.whl.metadata (4.6 kB)
191.6 Collecting napari-crop (from devbio-napari==0.11.0)
191.7 Downloading napari_crop-0.1.9-py3-none-any.whl.metadata (4.8 kB)
193.2 Collecting napari-clusters-plotter>=0.7.1 (from devbio-napari==0.11.0)
193.2 Downloading napari_clusters_plotter-0.8.1-py3-none-any.whl.metadata (21 kB)
194.7 Collecting napari-tabu (from devbio-napari==0.11.0)
194.7 Downloading napari_tabu-0.1.5-py3-none-any.whl.metadata (4.2 kB)
196.1 Collecting napari-workflow-optimizer (from devbio-napari==0.11.0)
196.1 Downloading napari_workflow_optimizer-0.1.4-py3-none-any.whl.metadata (12 kB)
197.2 Collecting napari-workflow-inspector (from devbio-napari==0.11.0)
197.5 Downloading napari_workflow_inspector-0.2.2-py3-none-any.whl.metadata (4.8 kB)
198.9 Collecting napari-curtain (from devbio-napari==0.11.0)
198.9 Downloading napari_curtain-0.1.1-py3-none-any.whl.metadata (3.9 kB)
200.6 Collecting napari-layer-details-display (from devbio-napari==0.11.0)
200.6 Downloading napari_layer_details_display-0.1.5-py3-none-any.whl.metadata (4.2 kB)
200.6 Requirement already satisfied: napari in /opt/conda/envs/devbio/lib/python3.10/site-packages (from devbio-napari==0.11.0) (0.5.6)
200.6 Requirement already satisfied: vispy in /opt/conda/envs/devbio/lib/python3.10/site-packages (from devbio-napari==0.11.0) (0.14.3)
201.9 Collecting napari-mouse-controls (from devbio-napari==0.11.0)
202.0 Downloading napari_mouse_controls-0.1.3-py3-none-any.whl.metadata (5.5 kB)
203.4 Collecting the-segmentation-game (from devbio-napari==0.11.0)
203.4 Downloading the_segmentation_game-0.2.0-py3-none-any.whl.metadata (12 kB)
204.8 Collecting napari-blob-detection (from devbio-napari==0.11.0)
204.9 Downloading napari_blob_detection-0.0.2-py3-none-any.whl.metadata (5.4 kB)
206.7 Collecting jupyterlab (from devbio-napari==0.11.0)
206.8 Downloading jupyterlab-4.3.5-py3-none-any.whl.metadata (16 kB)
208.2 Collecting napari-czifile2 (from devbio-napari==0.11.0)
208.2 Downloading napari_czifile2-0.2.7-py3-none-any.whl.metadata (3.0 kB)
209.4 Collecting napari-roi (from devbio-napari==0.11.0)
209.4 Downloading napari_roi-0.1.8-py3-none-any.whl.metadata (4.4 kB)
209.4 Requirement already satisfied: pydantic!=1.10.0 in /opt/conda/envs/devbio/lib/python3.10/site-packages (from devbio-napari==0.11.0) (2.10.5)
210.9 Collecting napari-pystackreg (from devbio-napari==0.11.0)
211.0 Downloading napari_pystackreg-0.1.4-py3-none-any.whl.metadata (11 kB)
211.0 Requirement already satisfied: imageio!=2.22.1 in /opt/conda/envs/devbio/lib/python3.10/site-packages (from devbio-napari==0.11.0) (2.37.0)
212.2 Collecting redlionfish (from devbio-napari==0.11.0)
212.3 Downloading RedLionfish-0.10-py3-none-any.whl.metadata (10 kB)
213.1 Collecting jupyter-server (from devbio-napari==0.11.0)
213.2 Downloading jupyter_server-2.15.0-py3-none-any.whl.metadata (8.4 kB)
214.0 Collecting seaborn (from devbio-napari==0.11.0)
214.0 Downloading seaborn-0.13.2-py3-none-any.whl.metadata (5.4 kB)
214.1 Requirement already satisfied: pillow>=8.3.2 in /opt/conda/envs/devbio/lib/python3.10/site-packages (from imageio!=2.22.1->devbio-napari==0.11.0) (11.1.0)
214.1 Requirement already satisfied: toolz in /opt/conda/envs/devbio/lib/python3.10/site-packages (from napari-assistant>=0.4.9->devbio-napari==0.11.0) (1.0.0)
214.1 Requirement already satisfied: magicgui in /opt/conda/envs/devbio/lib/python3.10/site-packages (from napari-assistant>=0.4.9->devbio-napari==0.11.0) (0.10.0)
215.4 Collecting pyperclip (from napari-assistant>=0.4.9->devbio-napari==0.11.0)
215.4 Downloading pyperclip-1.9.0.tar.gz (20 kB)
215.4 Preparing metadata (setup.py): started
215.8 Preparing metadata (setup.py): finished with status 'error'
215.8 error: subprocess-exited-with-error
215.8
215.8 × python setup.py egg_info did not run successfully.
215.8 │ exit code: 1
215.8 ╰─> [24 lines of output]
215.8 /opt/conda/envs/devbio/lib/python3.10/site-packages/_distutils_hack/__init__.py:53: UserWarning: Reliance on distutils from stdlib is deprecated. Users must rely on setuptools to provide the distutils module. Avoid importing distutils or import setuptools first, and avoid setting SETUPTOOLS_USE_DISTUTILS=stdlib. Register concerns at https://github.com/pypa/setuptools/issues/new?template=distutils-deprecation.yml
215.8 warnings.warn(
215.8 Traceback (most recent call last):
215.8 File "<string>", line 2, in <module>
215.8 File "<pip-setuptools-caller>", line 34, in <module>
215.8 File "/tmp/pip-install-b7oqbvb3/pyperclip_4f24823290b3491ab76c7cc505f695fa/setup.py", line 14, in <module>
215.8 setup(
215.8 File "/opt/conda/envs/devbio/lib/python3.10/site-packages/setuptools/__init__.py", line 117, in setup
215.8 return distutils.core.setup(**attrs)
215.8 File "/opt/conda/envs/devbio/lib/python3.10/distutils/core.py", line 108, in setup
215.8 _setup_distribution = dist = klass(attrs)
215.8 File "/opt/conda/envs/devbio/lib/python3.10/site-packages/setuptools/dist.py", line 319, in __init__
215.8 _Distribution.__init__(self, dist_attrs)
215.8 File "/opt/conda/envs/devbio/lib/python3.10/distutils/dist.py", line 292, in __init__
215.8 self.finalize_options()
215.8 File "/opt/conda/envs/devbio/lib/python3.10/site-packages/setuptools/dist.py", line 681, in finalize_options
215.8 ep(self)
215.8 File "/opt/conda/envs/devbio/lib/python3.10/site-packages/setuptools/dist.py", line 701, in _finalize_setup_keywords
215.8 ep.load()(self, ep.name, value)
215.8 File "/opt/conda/envs/devbio/lib/python3.10/importlib/metadata/__init__.py", line 173, in load
215.8 return functools.reduce(getattr, attrs, module)
215.8 File "/opt/conda/envs/devbio/lib/python3.10/site-packages/setuptools/dist.py", line 80, in __getattr__
215.8 raise AttributeError(f"module {__name__!r} has no attribute {name!r}")
215.8 AttributeError: module 'setuptools.dist' has no attribute 'check_test_suite'
215.8 [end of output]
215.8
215.8 note: This error originates from a subprocess, and is likely not a problem with pip.
236.0 error: metadata-generation-failed
236.0
236.0 × Encountered error while generating package metadata.
236.0 ╰─> See above for output.
236.0
236.0 note: This is an issue with the package mentioned above, not pip.
236.0 hint: See above for details.
Let me take a look at https://github.com/conda-forge/devbio-napari-feedstock/pull/27 and see if we can make it pass!
Hi @jaimergp ,
thank you for your prompt answer! The build pass but I still get an error :
running napari / naparia return this error :
Traceback (most recent call last):
File "/opt/conda/envs/devbio/bin/naparia", line 6, in <module>
from napari_assistant import main
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari_assistant/__init__.py", line 1, in <module>
from ._gui import Assistant
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari_assistant/_gui/__init__.py", line 1, in <module>
from ._Assistant import Assistant
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari_assistant/_gui/_Assistant.py", line 9, in <module>
from .._categories import CATEGORIES, Category, filter_categories, find_function, get_category_of_function
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari_assistant/_categories.py", line 6, in <module>
from napari.layers import Image, Labels, Layer
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/layers/__init__.py", line 10, in <module>
from napari.layers.base import Layer
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/layers/base/__init__.py", line 1, in <module>
from napari.layers.base._base_constants import ActionType
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/layers/base/_base_constants.py", line 4, in <module>
from napari.utils.misc import StringEnum
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/utils/__init__.py", line 2, in <module>
from napari.utils._dask_utils import resize_dask_cache
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/napari/utils/_dask_utils.py", line 9, in <module>
import dask.array as da
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/dask/array/__init__.py", line 56, in <module>
from dask.array import backends, fft, lib, linalg, ma, overlap, random
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/dask/array/fft.py", line 11, in <module>
import scipy.fftpack
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/fftpack/__init__.py", line 93, in <module>
from ._basic import *
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/fftpack/_basic.py", line 8, in <module>
from scipy.fft import _pocketfft
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/fft/__init__.py", line 91, in <module>
from ._fftlog import fht, ifht, fhtoffset
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/fft/_fftlog.py", line 10, in <module>
from ._fftlog_backend import fhtoffset
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/fft/_fftlog_backend.py", line 4, in <module>
from ..special import loggamma, poch
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/special/__init__.py", line 826, in <module>
from . import _basic
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/special/_basic.py", line 22, in <module>
from ._multiufuncs import (assoc_legendre_p_all,
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/special/_multiufuncs.py", line 142, in <module>
sph_legendre_p = MultiUFunc(
File "/opt/conda/envs/devbio/lib/python3.10/site-packages/scipy/special/_multiufuncs.py", line 41, in __init__
raise ValueError("All ufuncs must have type `numpy.ufunc`."
ValueError: All ufuncs must have type `numpy.ufunc`. Received (<ufunc 'sph_legendre_p'>, <ufunc 'sph_legendre_p'>, <ufunc 'sph_legendre_p'>)
conda list
conda list
# packages in environment at /opt/conda/envs/devbio:
#
# Name Version Build Channel
_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 2_gnu conda-forge
aiofiles 22.1.0 pyhd8ed1ab_0 conda-forge
aiosqlite 0.20.0 pyhaa4b35c_1 conda-forge
alabaster 1.0.0 pyhd8ed1ab_1 conda-forge
alsa-lib 1.2.8 h166bdaf_0 conda-forge
annotated-types 0.7.0 pyhd8ed1ab_1 conda-forge
anyio 3.7.1 pyhd8ed1ab_0 conda-forge
aom 3.5.0 h27087fc_0 conda-forge
apoc-backend 0.12.0 pyhd8ed1ab_1 conda-forge
app-model 0.3.1 pypi_0 pypi
appdirs 1.4.4 pyhd8ed1ab_1 conda-forge
argon2-cffi 23.1.0 pyhd8ed1ab_1 conda-forge
argon2-cffi-bindings 21.2.0 py310ha75aee5_5 conda-forge
arrow 1.3.0 pyhd8ed1ab_1 conda-forge
asciitree 0.3.3 pypi_0 pypi
asttokens 3.0.0 pyhd8ed1ab_1 conda-forge
attr 2.5.1 h166bdaf_1 conda-forge
attrs 24.3.0 pypi_0 pypi
autopep8 2.3.2 pyhd8ed1ab_0 conda-forge
babel 2.16.0 pypi_0 pypi
bcrypt 3.2.0 pypi_0 pypi
beautifulsoup4 4.10.0 pypi_0 pypi
bleach 6.2.0 pyh29332c3_4 conda-forge
bleach-with-css 6.2.0 h82add2a_4 conda-forge
blinker 1.4 pypi_0 pypi
blosc 1.21.5 h0f2a231_0 conda-forge
brotli 1.0.9 h166bdaf_9 conda-forge
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redlionfish 0.9 py310hff52083_3 conda-forge
referencing 0.36.1 pypi_0 pypi
reikna 0.8.0 pyhd8ed1ab_0 conda-forge
requests 2.32.3 pyhd8ed1ab_1 conda-forge
requests-toolbelt 0.9.1 pypi_0 pypi
rfc3339-validator 0.1.4 pyhd8ed1ab_1 conda-forge
rfc3986-validator 0.1.1 pyh9f0ad1d_0 conda-forge
rich 13.9.4 pyhd8ed1ab_1 conda-forge
rpds-py 0.22.3 pypi_0 pypi
scikit-image 0.25.0 py310h5eaa309_0 conda-forge
scikit-learn 1.6.1 py310h27f47ee_0 conda-forge
scipy 1.15.1 pypi_0 pypi
seaborn 0.13.2 hd8ed1ab_3 conda-forge
seaborn-base 0.13.2 pyhd8ed1ab_3 conda-forge
secretstorage 3.3.1 pypi_0 pypi
send2trash 1.8.3 pyh0d859eb_1 conda-forge
setproctitle 1.2.2 pypi_0 pypi
setuptools 59.6.0 pypi_0 pypi
shellingham 1.5.4 pyhd8ed1ab_1 conda-forge
simpleitk 2.2.1 py310h2b9ea3a_1 conda-forge
sip 6.7.12 py310hc6cd4ac_0 conda-forge
siphash24 1.7 py310ha75aee5_0 conda-forge
six 1.17.0 pyhd8ed1ab_0 conda-forge
snappy 1.1.10 hdb0a2a9_1 conda-forge
sniffio 1.3.1 pyhd8ed1ab_1 conda-forge
snowballstemmer 2.2.0 pyhd8ed1ab_0 conda-forge
soupsieve 2.3.1 pypi_0 pypi
sphinx 8.1.3 pyhd8ed1ab_1 conda-forge
sphinxcontrib-applehelp 2.0.0 pyhd8ed1ab_1 conda-forge
sphinxcontrib-devhelp 2.0.0 pyhd8ed1ab_1 conda-forge
sphinxcontrib-htmlhelp 2.1.0 pyhd8ed1ab_1 conda-forge
sphinxcontrib-jsmath 1.0.1 pyhd8ed1ab_1 conda-forge
sphinxcontrib-qthelp 2.0.0 pyhd8ed1ab_1 conda-forge
sphinxcontrib-serializinghtml 2.0.0 pypi_0 pypi
stack_data 0.6.3 pyhd8ed1ab_1 conda-forge
stackview 0.12.0 pyhd8ed1ab_1 conda-forge
statsmodels 0.14.4 py310hf462985_0 conda-forge
superqt 0.7.1 pypi_0 pypi
svt-av1 1.4.1 hcb278e6_0 conda-forge
tabulate 0.9.0 pyhd8ed1ab_2 conda-forge
tbb 2021.9.0 hf52228f_0 conda-forge
terminado 0.18.1 pyh0d859eb_0 conda-forge
the-segmentation-game 0.2.0 pyhd8ed1ab_0 conda-forge
threadpoolctl 3.5.0 pyhc1e730c_0 conda-forge
tifffile 2025.1.10 pypi_0 pypi
tinycss2 1.4.0 pyhd8ed1ab_0 conda-forge
tk 8.6.13 noxft_h4845f30_101 conda-forge
toml 0.10.2 pyhd8ed1ab_1 conda-forge
tomli 2.2.1 pyhd8ed1ab_1 conda-forge
tomli-w 1.2.0 pyhd8ed1ab_0 conda-forge
toolz 1.0.0 pyhd8ed1ab_1 conda-forge
tornado 6.4.2 py310ha75aee5_0 conda-forge
tqdm 4.67.1 pyhd8ed1ab_1 conda-forge
traitlets 5.14.3 pyhd8ed1ab_1 conda-forge
transforms3d 0.4.2 pyhd8ed1ab_1 conda-forge
triangle 20250106 pypi_0 pypi
typer 0.15.1 pypi_0 pypi
typer-slim 0.15.2 pyh29332c3_0 conda-forge
typer-slim-standard 0.15.2 h801b22e_0 conda-forge
types-python-dateutil 2.9.0.20241206 pyhd8ed1ab_0 conda-forge
typing-extensions 4.12.2 hd8ed1ab_1 conda-forge
typing_extensions 4.12.2 pyha770c72_1 conda-forge
tzdata 2025a h78e105d_0 conda-forge
umap-learn 0.5.7 py310hff52083_1 conda-forge
unicodedata2 16.0.0 py310ha75aee5_0 conda-forge
uri-template 1.3.0 pyhd8ed1ab_1 conda-forge
urllib3 2.3.0 pyhd8ed1ab_0 conda-forge
vispy 0.14.3 py310h21d447c_1 conda-forge
wadllib 1.3.6 pypi_0 pypi
watchdog 2.1.6 pypi_0 pypi
wcwidth 0.2.13 pyhd8ed1ab_1 conda-forge
webcolors 24.11.1 pyhd8ed1ab_0 conda-forge
webencodings 0.5.1 pyhd8ed1ab_3 conda-forge
websocket-client 1.8.0 pyhd8ed1ab_1 conda-forge
wheel 0.37.1 pypi_0 pypi
widgetsnbextension 4.0.13 pyhd8ed1ab_1 conda-forge
wrapt 1.17.2 py310ha75aee5_0 conda-forge
x264 1!164.3095 h166bdaf_2 conda-forge
x265 3.5 h924138e_3 conda-forge
xcb-util 0.4.0 h516909a_0 conda-forge
xcb-util-image 0.4.0 h166bdaf_0 conda-forge
xcb-util-keysyms 0.4.0 h516909a_0 conda-forge
xcb-util-renderutil 0.3.9 h166bdaf_0 conda-forge
xcb-util-wm 0.4.1 h516909a_0 conda-forge
xdg 5.0.0 pypi_0 pypi
xkeyboard-config 2.38 h0b41bf4_0 conda-forge
xorg-fixesproto 5.0 hb9d3cd8_1003 conda-forge
xorg-kbproto 1.0.7 hb9d3cd8_1003 conda-forge
xorg-libice 1.1.2 hb9d3cd8_0 conda-forge
xorg-libsm 1.2.5 he73a12e_0 conda-forge
xorg-libx11 1.8.4 h0b41bf4_0 conda-forge
xorg-libxau 1.0.12 hb9d3cd8_0 conda-forge
xorg-libxdmcp 1.1.5 hb9d3cd8_0 conda-forge
xorg-libxext 1.3.4 h0b41bf4_2 conda-forge
xorg-libxfixes 5.0.3 h7f98852_1004 conda-forge
xorg-libxrender 0.9.10 h7f98852_1003 conda-forge
xorg-renderproto 0.11.1 hb9d3cd8_1003 conda-forge
xorg-xextproto 7.3.0 hb9d3cd8_1004 conda-forge
xorg-xproto 7.0.31 hb9d3cd8_1008 conda-forge
xz 5.6.4 hbcc6ac9_0 conda-forge
xz-gpl-tools 5.6.4 hbcc6ac9_0 conda-forge
xz-tools 5.6.4 hb9d3cd8_0 conda-forge
y-py 0.5.9 py310h4426083_0 conda-forge
yaml 0.2.5 h7f98852_2 conda-forge
ypy-websocket 0.8.2 pyhd8ed1ab_0 conda-forge
zarr 2.18.3 pypi_0 pypi
zeroconf 0.38.3 pypi_0 pypi
zeromq 4.3.5 h59595ed_1 conda-forge
zfp 1.0.1 h5888daf_2 conda-forge
zipp 3.21.0 pyhd8ed1ab_1 conda-forge
zlib 1.3.1 hb9d3cd8_2 conda-forge
zlib-ng 2.0.7 h0b41bf4_0 conda-forge
zstandard 0.19.0 py310h5764c6d_0 conda-forge
zstd 1.5.7 hb8e6e7a_1 conda-forge
Hi there!
I finally manage to solve the issue using :
mamba create --name devbio napari[all] python=3.9 devbio-napari=0.11.0 -c conda-forge -c pytorch 🥳
while
mamba create --name devbio napari python=3.9 devbio-napari=0.11.0 -c conda-forge -c pytorch was not working 😵💫
Cheers
Romain