Merge branch 'restructure' of gitlab.ub.uni-bielefeld.de:olivier.bertrand/navipy into restructure

.gitlab-ci.yml

@@ -68,6 +68,7 @@ coverage:
   - conda activate $CI_PROJECT_DIR/envs/blender_navipy
   - echo $CONDA_PREFIX
   - python navipy/scripts/blendunittest.py
+  coverage: '/(?i)total.*? (100(?:\.0+)?\%|[1-9]?\d(?:\.\d+)?\%)$/'
   
   artifacts:
    reports:
@@ -88,7 +89,7 @@ coverage_noblend:
   - echo $CONDA_PREFIX
   - echo $PWD
   - ls
-  - pytest --cov-config=.coveragerc --cov --cov-report term --cov-report xml:coverage_noblend.xml
+  - pytest ./ --cov-config=.coveragerc --cov --cov-report term --cov-report xml:coverage_noblend.xml
   coverage: '/(?i)total.*? (100(?:\.0+)?\%|[1-9]?\d(?:\.\d+)?\%)$/'
   
   artifacts:

navipy/resources/rebuild_db.sh

@@ -14,7 +14,7 @@ traj_file='./gridtwocylinders.csv'
 # move file just in case
 mv $db_filename $db_filename'.old'
 # run command
-blendalongtraj --blender-world $blender_world --config-file $blender_config --output-file $db_filename -trajectory $traj_file --logfile $log_file -vvv
+blendalongtraj --blender-world $blender_world --config-file $blender_config --output-file $db_filename --trajectory $traj_file --logfile $log_file -vvv
 
 #----
 # Rebuild second database