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petpvc-feedstock's Introduction

About petpvc-feedstock

Feedstock license: BSD-3-Clause

Home: https://github.com/UCL/PETPVC

Package license: Apache-2.0

Summary: Toolbox for partial volume correction (PVC) in positron emission tomography (PET)

Current build status

Azure
VariantStatus
linux_64 variant
osx_64 variant
osx_arm64 variant
win_64 variant

Current release info

Name Downloads Version Platforms
Conda Recipe Conda Downloads Conda Version Conda Platforms

Installing petpvc

Installing petpvc 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, petpvc can be installed with conda:

conda install petpvc

or with mamba:

mamba install petpvc

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

conda search petpvc --channel conda-forge

or with mamba:

mamba search petpvc --channel conda-forge

Alternatively, mamba repoquery may provide more information:

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

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

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

About conda-forge

Powered by NumFOCUS

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 petpvc-feedstock

If you would like to improve the petpvc 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/petpvc-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

petpvc-feedstock's People

Contributors

cf-blacksmithy avatar conda-forge-admin avatar conda-forge-curator[bot] avatar ghisvail avatar kristhielemans avatar regro-cf-autotick-bot avatar

Watchers

 avatar  avatar  avatar  avatar  avatar  avatar

petpvc-feedstock's Issues

ITK DLL/so required is ITK 5.2, but the package depends on ITK 5.3

Solution to issue cannot be found in the documentation.

  • I checked the documentation.

Issue

Running any of the PETPVC executables currently doesn't work. On Windows, nothing happens at all. On Linux I get

$ pvc_make4d
pvc_make4d: error while loading shared libraries: libITKIOBruker-5.2.so.1: cannot open shared object file: No such file or directory

On Windows, checking the DLL dependencies, I see similarly

dumpbin /dependents .\pvc_make4d.exe
Microsoft (R) COFF/PE Dumper Version 14.29.30138.0
Copyright (C) Microsoft Corporation.  All rights reserved.


Dump of file .\pvc_make4d.exe

File Type: EXECUTABLE IMAGE

  Image has the following dependencies:

    ITKIOBruker-5.2.dll
    ITKIOHDF5-5.2.dll
    ITKIOJPEG2000-5.2.dll
    <snip>

However, conda list confirms the package depends on libitk 5.3.0. Indeed, the DLLs in the miniconda3\envs\petpvc\Library\bin are the 5.3 ones (and some on Linux).

I don't quite understand how this can happen, but maybe a re-render that went wrong?

Installed packages

This is after installing libitk-devel as well, but that doesn't really make any difference
# packages in environment at C:\Users\krisf\miniconda3\envs\petpvc:
#
# Name                    Version                   Build  Channel
ca-certificates           2022.12.7            h5b45459_0    conda-forge
eigen                     3.4.0                h2d74725_0    conda-forge
fftw                      3.3.10          nompi_h38027f0_106    conda-forge
hdf5                      1.12.2          nompi_h57737ce_101    conda-forge
jpeg                      9e                   hcfcfb64_3    conda-forge
krb5                      1.20.1               heb0366b_0    conda-forge
lerc                      4.0.0                h63175ca_0    conda-forge
libaec                    1.0.6                h63175ca_1    conda-forge
libcurl                   7.88.1               h68f0423_0    conda-forge
libdeflate                1.17                 hcfcfb64_0    conda-forge
libhwloc                  2.9.0                h51c2c0f_0    conda-forge
libiconv                  1.17                 h8ffe710_0    conda-forge
libitk                    5.3.0                h2d081bb_2    conda-forge
libitk-devel              5.3.0                h002f227_2    conda-forge
libssh2                   1.10.0               h9a1e1f7_3    conda-forge
libtiff                   4.5.0                hf8721a0_2    conda-forge
libxml2                   2.10.3               hc3477c8_0    conda-forge
libzlib                   1.2.13               hcfcfb64_4    conda-forge
openssl                   3.0.8                hcfcfb64_0    conda-forge
petpvc                    1.2.10               h2d74725_0    conda-forge
pthreads-win32            2.9.1                hfa6e2cd_3    conda-forge
tbb                       2021.8.0             h91493d7_0    conda-forge
tbb-devel                 2021.8.0             h91493d7_0    conda-forge
ucrt                      10.0.22621.0         h57928b3_0    conda-forge
vc                        14.3                hb6edc58_10    conda-forge
vs2015_runtime            14.34.31931         h4c5c07a_10    conda-forge
xz                        5.2.6                h8d14728_0    conda-forge
zstd                      1.5.2                h12be248_6    conda-forge

Environment info

active environment : base
    active env location : C:\Users\krisf\miniconda3
            shell level : 1
       user config file : C:\Users\krisf\.condarc
 populated config files : C:\Users\krisf\.condarc
          conda version : 23.1.0
    conda-build version : 3.23.3
         python version : 3.8.15.final.0
       virtual packages : __archspec=1=x86_64
                          __win=0=0
       base environment : C:\Users\krisf\miniconda3  (writable)
      conda av data dir : C:\Users\krisf\miniconda3\etc\conda
  conda av metadata url : None
           channel URLs : https://conda.anaconda.org/conda-forge/win-64
                          https://conda.anaconda.org/conda-forge/noarch
                          https://repo.anaconda.com/pkgs/main/win-64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/r/win-64
                          https://repo.anaconda.com/pkgs/r/noarch
                          https://repo.anaconda.com/pkgs/msys2/win-64
                          https://repo.anaconda.com/pkgs/msys2/noarch
          package cache : C:\Users\krisf\miniconda3\pkgs
                          C:\Users\krisf\.conda\pkgs
                          C:\Users\krisf\AppData\Local\conda\conda\pkgs
       envs directories : C:\Users\krisf\miniconda3\envs
                          C:\Users\krisf\.conda\envs
                          C:\Users\krisf\AppData\Local\conda\conda\envs
               platform : win-64
             user-agent : conda/23.1.0 requests/2.28.2 CPython/3.8.15 Windows/10 Windows/10.0.19044
          administrator : False
             netrc file : None
           offline mode : False

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