Hi Andreas, Thanks for the notice that pytz is already on Debian.
And thanks so much for the patch :) I will continue working on that and trying to fix the issue. I will keep you updated Cheers, Arias Emmanuel @eamanu yaerobi.com On Wed, Apr 15, 2020 at 12:24 PM Andreas Tille <andr...@an3as.eu> wrote: > Hi Emmanuel, > > I've seen your ITP of idseq-dag. You mentioned > > idseq-dag depends on pytz. I will send the ITP for that package. > > I admit its a bit confusing but that package is python3-tz in Debian, is > packaged and I've added it to Build-Depends (amongst other changes). > > The current packaging is suffering from failures inside the test suite > looking like this: > > > ====================================================================== > ERROR: test_step_single > (tests.generate_alignment_viz.GenerateAlignmentVizTest) > ---------------------------------------------------------------------- > Traceback (most recent call last): > File > "/build/idseq-dag-4.2.3/.pybuild/cpython3_3.8_idseq-dag/build/tests/generate_alignment_viz.py", > line 9, in test_step_single > run_step = > IdseqStepSetup.get_step_object(PipelineStepGenerateAlignmentViz, > "alignment_viz_out", paired=False) > File > "/build/idseq-dag-4.2.3/.pybuild/cpython3_3.8_idseq-dag/build/tests/idseq_step_setup.py", > line 47, in get_step_object > PipelineFlow.fetch_input_files_from_s3( > File > "/build/idseq-dag-4.2.3/.pybuild/cpython3_3.8_idseq-dag/build/idseq_dag/engine/pipeline_flow.py", > line 179, in fetch_input_files_from_s3 > output_file = idseq_dag.util.s3.fetch_from_s3(s3_file, local_dir, > allow_s3mi=True) > File > "/build/idseq-dag-4.2.3/.pybuild/cpython3_3.8_idseq-dag/build/idseq_dag/util/s3.py", > line 286, in fetch_from_s3 > if is_reference or os.path.abspath(dst).startswith(config["REF_DIR"]): > TypeError: startswith first arg must be str or a tuple of str, not NoneType > > > The issue is that I had to replace some default dir in a patch[1]. > Unfortunately this did not propagated into the config dictionary and > the key "REF_DIR" is not set. For the moment I gave up here - may > be you want to continue by either fixing my patch or finding a better > way to convince the test suite to write to some place where this is > permitted. > > Kind regards > > Andreas. > > [1] > https://salsa.debian.org/med-team/idseq-dag/-/blob/master/debian/patches/set_default_output_dir_var_tmp.patch > > On Sat, Apr 11, 2020 at 12:38:13AM -0300, Emmanuel Arias wrote: > > Hello everybody, > > > > I am available to help. I will be working on the TODO list [0]. > > > > [0] > > > https://salsa.debian.org/med-team/community/2020-covid19-hackathon/-/wikis/COVID-19-Hackathon-packages-needing-work > > > > Cheers, > > Arias Emmanuel > > @eamanu > > yaerobi.com > > > > > > On Fri, Apr 10, 2020 at 3:10 AM Olek Wojnar <o...@debian.org> wrote: > > > > > On 4/9/20 7:37 PM, fancycade wrote: > > > > Thank you for the assistance with this! > > > > > > > > I have uploaded my package to the appropriate repository under the > > > > Python Modules team and will reach out for a RFS. > > > > > > Great, thanks for your contribution! > > > > > > -Olek > > > > > > > > > > > > > > -- > http://fam-tille.de >
