diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml index c0b9cb3911c6888d59f898b774ce5770ca3e7534..408274b023cbca2582f9e78e50f240b85fc3c270 100755 --- a/.gitlab-ci.yml +++ b/.gitlab-ci.yml @@ -139,7 +139,8 @@ coverage: - pip3 install -r requirements-dev.txt script: - pwd - - coverage combine .coverage.unit .coverage.functional + # - coverage combine .coverage.unit .coverage.functional + - mv .coverage.functional .coverage - coverage report -i - coverage html -i # test coverage parsing: \d+\%\s*$ diff --git a/doc/source/usage.rst b/doc/source/usage.rst index 8463f60afe571cb7a2cf57112d241ffb661bef56..4f9f309536ce9883d21d1a9f9dae11b883425a08 100755 --- a/doc/source/usage.rst +++ b/doc/source/usage.rst @@ -71,7 +71,6 @@ Configfile has the following format: .. code-block:: text [module] - param1 = "test" param2 = test param3= True param4 =yes @@ -83,7 +82,7 @@ Where: - `module` corresponds to the module for which you want to give a parameter (`prepare`, `annotate`, `pangenome`, `corepers`, `align`, `tree`). - a boolean parameter is set with one of the boolean values (case-insensitive): 'yes'/'no', 'on'/'off', 'true'/'false' or '1'/'0' (examples with `param3`, `param4` and `param5` which are all booleans with True value) - - `""` are not mandatory for str arguments: `param1` and `param2` are the same. + - `""` around strings will be removed. It is better to avoid using them (ex: `param2 = test` instead of `param2 = "test"`) - Use `#` to comment a line (information after a `#` will not be taken into account by the parser). - Use `:` or `=` to delimit argument names from values