Your message dated Tue, 3 Nov 2020 08:30:18 +0200 with message-id <cam8zjqs5-5w3nziadveokfxzqqyrovhtx_uckzac-qqomhj...@mail.gmail.com> and subject line ctdopts autopkg tests are failing, blocking python3-defaults has caused the Debian Bug report #973013, regarding ctdopts autopkg tests are failing, blocking python3-defaults to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 973013: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=973013 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: src:ctdopts Version: 1.4-1 Severity: serious Tags: sid bullseye User: debian-pyt...@lists.debian.org Usertags: python3.9 autopkgtest [07:37:47]: test run-example: [----------------------- + py3versions -r + echo Testing with python3.9: + python3.9 -c import CTDopts; print(CTDopts) Testing with python3.9: <module 'CTDopts' from '/tmp/autopkgtest-lxc.e7_px4dx/downtmp/build.CLh/src/CTDopts/__init__.py'> + python3.9 /usr/share/doc/python3-ctdopts/examples/example.py Model being written to exampleTool.ctd... Model loaded from exampleTool.ctd... For debugging purposes we can output a human readable representation of Parameter objects. Here's the first one: PARAMETER positive_int type: int default: 5 tags: advanced, magic restrictions on numeric range: 0 to None description: A positive integer parameter The following parameters were registered in the model: ['positive_int', 'input_files', 'output', 'this_that', 'param_1', 'param_2', 'param_3'] The same parameters with subgroup information, if they were registered under parameter groups: ['positive_int', 'input_files', 'output', 'this_that', 'subparams:param_1', 'subparams:param_2', 'subparams:subsubparam:param_3'] A dictionary of parameters with default values, returned by CTDModel.get_defaults(): { 'positive_int': 5, 'subparams': { 'param_1': 5.5, 'param_2': [0.0, 2.5, 5.0], 'subsubparam': {'param_3': 2}}, 'this_that': 'this'} As you can see, parameter values are usually stored in nested dictionaries. If you want a flat dictionary, you canget that using CTDopts.flatten_dict(). Flat keys can be either tuples of tree node (subgroup) names down to the parameter... { ('positive_int',): 5, ('subparams', 'param_1'): 5.5, ('subparams', 'param_2'): [0.0, 2.5, 5.0], ('subparams', 'subsubparam', 'param_3'): 2, ('this_that',): 'this'} ...or they can be strings where nesing levels are separated by colons: { 'positive_int': 5, 'subparams:param_1': 5.5, 'subparams:param_2': [0.0, 2.5, 5.0], 'subparams:subsubparam:param_3': 2, 'this_that': 'this'} We can create dictionaries of arguments on our own that we want to validate against the model.CTDopts can read them from argument-storing CTD files or from the command line, but we can just define them in a nested dictionary on our own as well. We start with defining them explicitly. { 'input_files': ['file1.fastq', 'file2.fastq', 'file3.fastq'], 'positive_int': 111, 'subparams': {'param_1': '999.0'}} We can validate these arguments against the model, and get a dictionary with parameter types correctly casted and defaults set. Note that subparams:param_1 was casted from string to a floating point number because that's how it was defined in the model. { 'input_files': ['file1.fastq', 'file2.fastq', 'file3.fastq'], 'positive_int': 111, 'subparams': { 'param_1': 999.0, 'param_2': [0.0, 2.5, 5.0], 'subsubparam': {'param_3': 2}}, 'this_that': 'this'} We can write a CTD file containing these validated argument values. Just call CTDModel.write_ctd() with an extra parameter: the nested argument dictionary containing the actual values. As mentioned earlier, CTDopts can load argument values from CTD files. Feel free to change some values in exampleTool_preset_params.ctd you've just written, and load it back. Traceback (most recent call last): File "/usr/share/doc/python3-ctdopts/examples/example.py", line 165, in <module> args_from_ctd = args_from_file('exampleTool_preset_params.ctd') File "/usr/lib/python3/dist-packages/CTDopts/CTDopts.py", line 1230, in args_from_file return get_args(parameters, base=None) File "/usr/lib/python3/dist-packages/CTDopts/CTDopts.py", line 1211, in get_args get_args(child, current_group) File "/usr/lib/python3/dist-packages/CTDopts/CTDopts.py", line 1224, in get_args if element.getchildren(): AttributeError: 'xml.etree.ElementTree.Element' object has no attribute 'getchildren' autopkgtest [07:37:47]: test run-example: -----------------------] autopkgtest [07:37:47]: test run-example: - - - - - - - - - - results - - - - - - - - - - run-example FAIL non-zero exit status 1 autopkgtest [07:37:48]: @@@@@@@@@@@@@@@@@@@@ summary run-example FAIL non-zero exit status 1
--- End Message ---
--- Begin Message ---Version: 1.4-2
--- End Message ---
