The installation as a cgat-developer is currently failing for me due to the curl commands in install.sh trying download conda environment files cgat-*.yml taht do not exist (yet?).
In short, there seem to be some YAML files of environment specifications missing from GitHub.
That said, separately, I have managed to install cgat-apps as a regular user (i.e., not CGAT developer) using the recommended installation (that requires a pre-existing Miniconda installation, obviously)
The installation as a cgat-developer is currently failing for me due to the
curl
commands ininstall.sh
trying download conda environment filescgat-*.yml
taht do not exist (yet?).In short, there seem to be some YAML files of environment specifications missing from GitHub.
Specifically, in this
else
block https://github.com/cgat-developers/cgat-apps/blob/597cb47f2196df978c75dd8e3493eb22d163551b/install.sh#L103 all theCONDA_INSTALL_TYPE_APPS=
andCONDA_INSTALL_TYPE_CORE=
instances seem to point to files (e.g.,*-production/yml
,*-devel.yml
) that are not available yet when resolving the commands here (https://github.com/cgat-developers/cgat-apps/blob/597cb47f2196df978c75dd8e3493eb22d163551b/install.sh#L328)For instance for cgat-apps, the
--devel
flags setCONDA_INSTALL_TYPE_APPS=apps-devel.yml
withTRAVIS_BRANCH=master
, this resolves towhile only
cgat-apps.yml
currently exists at the following link. https://raw.githubusercontent.com/cgat-developers/cgat-apps/master/conda/environments/cgat-apps.ymlThose
raw.githubusercontent.com
point to the following folder in the GitHub repository https://github.com/cgat-developers/cgat-apps/tree/master/conda/environmentsThat said, separately, I have managed to install cgat-apps as a regular user (i.e., not CGAT developer) using the recommended installation (that requires a pre-existing Miniconda installation, obviously)
Any feedback welcome.