diff --git a/frangiPANe/__init__.py b/frangiPANe/__init__.py index 7aa23e4151fdaaf14b4af960e41380b916fef964..6840e21a0ec77a3fe8d4d4987ac9654d615e663b 100644 --- a/frangiPANe/__init__.py +++ b/frangiPANe/__init__.py @@ -4,14 +4,13 @@ from frangiPANe import generate_stats as gs from .module import FrangiPANe from pathlib import Path -from .global_variables import GIT_URL, DOCS, DATATEST_URL_FILES, SINGULARITY_URL_FILES +from .global_variables import GIT_URL, DOCS, DATATEST_URL_FILES, APPTAINER_URL_FILES from ._version import version as __version__ from ._version import version_tuple #TODO SEB : LOGO https://forge.ird.fr/diade/frangipane/-/blob/main/docs/source/_images/frangiPANe.png?ref_type=heads logo = Path(__file__).parent.resolve().joinpath('frangiPANe.png').as_posix() -__version__ = Path(__file__).parent.resolve().joinpath("VERSION").open("r").readline().strip() __doc__ = """frangiPANe was developed as a modular and interactive application to simplify the construction of a panreference using the map-then-assembly approach. It consists in a Jupyter Notebook application that centralizes code,documentation and interactive visualizations together""" @@ -52,8 +51,9 @@ dico_tool = { "url": GIT_URL, "docs": DOCS, "description_tool": description_tools, - "singularity_url_files": SINGULARITY_URL_FILES, + "apptainer_url_files": APPTAINER_URL_FILES, "datatest_url_files": DATATEST_URL_FILES, "snakefile": Path(__file__).resolve().parent.joinpath("snakefiles", "Snakefile"), - "snakemake_scripts": Path(__file__).resolve().parent.joinpath("snakemake_scripts") + "snakemake_scripts": Path(__file__).resolve().parent.joinpath("snakemake_scripts"), + "git_configfile_path": Path(__file__).resolve().parent.joinpath("install_files","configfile.yml") } diff --git a/frangiPANe/global_variables.py b/frangiPANe/global_variables.py index 922cd372a4e4c5aeb4c8a0191eeacabad4a6ce8c..2fd64e7aa3ba6b77eb91326ea104aa9f242c4e36 100644 --- a/frangiPANe/global_variables.py +++ b/frangiPANe/global_variables.py @@ -3,7 +3,7 @@ from pathlib import Path DOCS = "https://frangiPANe.readthedocs.io/en/latest/" GIT_URL = "https://forge.ird.fr/diade/frangipane" -SINGULARITY_URL_FILES = [('https://itrop.ird.fr/frangiPANe/', +APPTAINER_URL_FILES = [('https://itrop.ird.fr/frangiPANe/', f'INSTALL_PATH/containers/frangiPANe.sif') ]