conda-forge / r-upsetr-feedstock

A conda-smithy repository for r-upsetr.

About r-upsetr-feedstock

Feedstock license: BSD-3-Clause

Home: http://github.com/hms-dbmi/UpSetR

Package license: MIT

Summary: Creates visualizations of intersecting sets using a novel matrix design, along with visualizations of several common set, element and attribute related tasks.

Current build status

All platforms:

Current release info

Name	Downloads	Version	Platforms

Installing r-upsetr

Installing r-upsetr 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, r-upsetr can be installed with conda:

conda install r-upsetr

or with mamba:

mamba install r-upsetr

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

conda search r-upsetr --channel conda-forge

or with mamba:

mamba search r-upsetr --channel conda-forge

Alternatively, mamba repoquery may provide more information:

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

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

# List dependencies of `r-upsetr`:
mamba repoquery depends r-upsetr --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 r-upsetr-feedstock

If you would like to improve the r-upsetr 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/r-upsetr-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

• @conda-forge/r
• @dlaehnemann

r-upsetr-feedstock's Issues

Accidentally added main label in gcc7 build?

Looks like accidentally the main label was added to the gcc7 build:
https://anaconda.org/conda-forge/r-upsetr/files

This has the consequence that the package is pulled into environments where other R packages have been build with a different GCC. I guess this should be fixed by somebody with admin rights in the channel on anaconda.org, or am I missing something here?

@bgruening @dpryan79

update circleci

@conda-forge-admin, please update circle

Package fails to load

Issue:
The package fails to load with the following error:

Error: package or namespace load failed for ‘UpSetR’:
 package ‘scales’ was installed by an R version with different internals; it needs to be reinstalled for use with this R version
Execution halted

Environment (conda list):

$ conda list
# Name                    Version                   Build  Channel
_r-mutex                  1.0.0               anacondar_1  
bwidget                   1.9.11                        1  
bzip2                     1.0.6                h470a237_2    conda-forge
ca-certificates           2018.11.29           ha4d7672_0    conda-forge
cairo                     1.14.12              h276e583_5    conda-forge
curl                      7.63.0               h74213dd_0    conda-forge
fontconfig                2.13.1               h65d0f4c_0    conda-forge
freetype                  2.9.1                h6debe1e_4    conda-forge
gettext                   0.19.8.1             h5e8e0c9_1    conda-forge
glib                      2.56.2               h464dc38_1    conda-forge
graphite2                 1.3.13               hfc679d8_0    conda-forge
gsl                       2.2.1                h0c605f7_3  
harfbuzz                  1.9.0                h04dbb29_1    conda-forge
icu                       58.2                 hfc679d8_0    conda-forge
jpeg                      9c                   h470a237_1    conda-forge
krb5                      1.16.2               hbb41f41_0    conda-forge
libcurl                   7.63.0               hbdb9355_0    conda-forge
libedit                   3.1.20170329         haf1bffa_1    conda-forge
libffi                    3.2.1                hfc679d8_5    conda-forge
libgcc-ng                 7.2.0                hdf63c60_3    conda-forge
libgfortran               3.0.0                         1    conda-forge
libiconv                  1.15                 h470a237_3    conda-forge
libpng                    1.6.36               ha92aebf_0    conda-forge
libssh2                   1.8.0                h5b517e9_3    conda-forge
libstdcxx-ng              7.2.0                hdf63c60_3    conda-forge
libtiff                   4.0.10               he6b73bb_1    conda-forge
libuuid                   2.32.1               h470a237_2    conda-forge
libxcb                    1.13                 h470a237_2    conda-forge
libxml2                   2.9.8                h422b904_5    conda-forge
make                      4.2.1             h470a237_1003    conda-forge
ncurses                   6.1                  hfc679d8_2    conda-forge
openssl                   1.0.2p               h470a237_2    conda-forge
pango                     1.40.14              he752989_2    conda-forge
pcre                      8.41                 hfc679d8_3    conda-forge
pixman                    0.34.0               h470a237_3    conda-forge
pthread-stubs             0.4                  h470a237_1    conda-forge
r-assertthat              0.2.0           r351h6115d3f_1001    conda-forge
r-base                    3.5.1                h391c2eb_5    conda-forge
r-cli                     1.0.1           r351h6115d3f_1000    conda-forge
r-colorspace              1.3_2            r351hc070d10_2    conda-forge
r-crayon                  1.3.4           r351h6115d3f_1001    conda-forge
r-digest                  0.6.18           r351hc070d10_0    conda-forge
r-fansi                   0.4.0            r351hc070d10_0    conda-forge
r-ggplot2                 3.1.0           r351h6115d3f_1000    conda-forge
r-glue                    1.3.0            r351h470a237_2    conda-forge
r-gridextra               2.3             r351h6115d3f_1001    conda-forge
r-gtable                  0.2.0           r351h6115d3f_1001    conda-forge
r-labeling                0.3             r351h6115d3f_1001    conda-forge
r-lattice                 0.20_38          r351hc070d10_0    conda-forge
r-lazyeval                0.2.1            r351hc070d10_2    conda-forge
r-magrittr                1.5             r351h6115d3f_1001    conda-forge
r-mass                    7.3_50           r351hc070d10_2    conda-forge
r-matrix                  1.2_14           r351hc070d10_2    conda-forge
r-mgcv                    1.8_24           r351hc070d10_2    conda-forge
r-munsell                 0.5.0           r351h6115d3f_1001    conda-forge
r-nlme                    3.1_137          r351h364d78e_0    conda-forge
r-pillar                  1.3.1           r351h6115d3f_1000    conda-forge
r-plyr                    1.8.4            r351h9d2a408_2    conda-forge
r-r6                      2.3.0           r351h6115d3f_1000    conda-forge
r-rcolorbrewer            1.1_2           r351h6115d3f_1001    conda-forge
r-rcpp                    1.0.0            r351h9d2a408_0    conda-forge
r-reshape2                1.4.3            r351h9d2a408_2    conda-forge
r-rlang                   0.3.0.1          r351h470a237_0    conda-forge
r-scales                  1.0.0            r351h9d2a408_1    conda-forge
r-stringi                 1.2.4            r351h9d2a408_1    conda-forge
r-stringr                 1.3.1           r351h6115d3f_1001    conda-forge
r-tibble                  1.4.2            r351hc070d10_2    conda-forge
r-upsetr                  1.3.3                 r351_1001    conda-forge
r-utf8                    1.1.4            r351hc070d10_0    conda-forge
r-viridislite             0.3.0           r351h6115d3f_1001    conda-forge
r-withr                   2.1.2           r351h6115d3f_1000    conda-forge
readline                  7.0                  haf1bffa_1    conda-forge
tk                        8.6.9                ha92aebf_0    conda-forge
tktable                   2.10                 h14c3975_0  
xorg-kbproto              1.0.7                h470a237_2    conda-forge
xorg-libice               1.0.9                h470a237_4    conda-forge
xorg-libsm                1.2.3                h8c8a85c_0    conda-forge
xorg-libx11               1.6.6                h470a237_0    conda-forge
xorg-libxau               1.0.8                h470a237_6    conda-forge
xorg-libxdmcp             1.1.2                h470a237_7    conda-forge
xorg-libxext              1.3.3                h470a237_4    conda-forge
xorg-libxrender           0.9.10               h470a237_2    conda-forge
xorg-renderproto          0.11.1               h470a237_2    conda-forge
xorg-xextproto            7.3.0                h470a237_2    conda-forge
xorg-xproto               7.0.31               h470a237_7    conda-forge
xz                        5.2.4                h470a237_1    conda-forge
zlib                      1.2.11               h470a237_3    conda-forge

Details about conda and system ( conda info ):

$ conda info
     active environment : test-upset
    active env location : /vol/home/koester/.local/opt/miniconda3/envs/test-upset
            shell level : 2
       user config file : /vol/home/koester/.condarc
 populated config files : /vol/home/koester/.condarc
          conda version : 4.5.11
    conda-build version : 3.4.2
         python version : 3.6.4.final.0
       base environment : /vol/home/koester/.local/opt/miniconda3  (writable)
           channel URLs : https://conda.anaconda.org/bioconda/linux-64
                          https://conda.anaconda.org/bioconda/noarch
                          https://conda.anaconda.org/conda-forge/linux-64
                          https://conda.anaconda.org/conda-forge/noarch
                          https://repo.anaconda.com/pkgs/main/linux-64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/free/linux-64
                          https://repo.anaconda.com/pkgs/free/noarch
                          https://repo.anaconda.com/pkgs/r/linux-64
                          https://repo.anaconda.com/pkgs/r/noarch
                          https://repo.anaconda.com/pkgs/pro/linux-64
                          https://repo.anaconda.com/pkgs/pro/noarch
          package cache : /vol/home/koester/.local/opt/miniconda3/pkgs
                          /vol/home/koester/.conda/pkgs
       envs directories : /vol/home/koester/.local/opt/miniconda3/envs
                          /vol/home/koester/.conda/envs
               platform : linux-64
             user-agent : conda/4.5.11 requests/2.18.4 CPython/3.6.4 Linux/4.4.0-139-generic ubuntu/14.04 glibc/2.19
                UID:GID : 2000:2003
             netrc file : /vol/home/koester/.netrc
           offline mode : False