Testing Bio::DB::NCBIHelper-1.7.6 failed

[tonyaseverson]

I tried to install Bio::DB::Taxonomy::entrez, but cpanm reported a failed test. Force installing revealed that the problem may be with Bio::DB::NCBIHelper-1.7.6. I haven't seen any other reports of this issue, and the software I'm using (HMMER2GO) that requires Bio::DB::Taxonomy::entrez seems to be unaffected, but below are the specific lines of the Test Summary Report and I've attached the logfile here: 1614304516.321615_build.log

Failed test at t/Taxonomy.t line 102. got: 'Actinomycetia' expected: 'Actinobacteria' Looks like you failed 1 test of 69. t/Taxonomy.t ........... Dubious, test returned 1 (wstat 256, 0x100) Failed 1/69 subtests

Test Summary Report

t/Taxonomy.t (Wstat: 256 Tests: 69 Failed: 1) Failed test: 44 Non-zero exit status: 1 Files=9, Tests=175, 157 wallclock secs ( 0.05 usr 0.01 sys + 4.43 cusr 0.50 csys = 4.99 CPU) Result: FAIL Failed 1/9 test programs. 1/175 subtests failed. make: *** [Makefile:944: test_dynamic] Error 1 -> FAIL Testing Bio-DB-NCBIHelper-1.7.6 failed but installing it anyway.

[cjfields]

This isn't out of the ordinary for remote tests, since any changes are largely out of our control. Just checking, b ut @tonyaseverson are you setting anything which runs entrez remote tests? These are typically off by default and test only upon release (where we normally catch these issues).

[tonyaseverson]

Thanks, @cjfields. Certainly not on purpose! As far as I know the tests applied during installation were defaults, but it is possible that I did something fishy. I've been working mainly with python for the last 8 years, and was rusty on installing Perl packages. Unfortunately, the command-line I used appears to have dropped off my history.

[cjfields]

@tonyaseverson a recent pull request for Bio::DB::NCBIHelper fixed this, so I am closing this ticket. Thanks for reporting!