[Bioc-devel] Package update before october 23rd deadline and build errors [duplicated, wrong email address previous]

Giulia Pais g|u||@p@|@1 @end|ng |rom gm@||@com
Sun Oct 25 21:57:31 CET 2020


we keep getting weird warning messages for check on windows, it's also 
even more odd since we got yesterday a build report with no errors or 
warnings but the build report for today gives an error on Windows Server 
2012 R2 Standard / x64 only. We can't understand what the warning is, 
why does it happen only for tests and also why it doesn't happen 
consistently (same lines of codes are run in examples in the documentation).

Could you give us further insight on the meaning of this warning? We are 
not able to reproduce it.

Also will our package be released for bioconductor 3.12?

Thank you

Il 21/10/2020 19:08, Pages, Herve ha scritto:
> Hi Giulia,
> Today's report is available. Unfortunately ISAnalytics tests are still
> failing on Windows:
> https://bioconductor.org/checkResults/devel/bioc-LATEST/ISAnalytics/tokay1-checksrc.html
> Note that you have this warning at the beginning of the tests:
>     > test_check("ISAnalytics")
>     Warning message:
>     In file(file, "rt") :
>       file("") only supports open = "w+" and open = "w+b": using the former
> Maybe it's relevant?
> In any case, that warning should not be ignored as it is most likely
> reporting a real problem.
> Best,
> H.
> On 10/21/20 02:58, Giulia Pais wrote:
>> Hello, bioconductor team,
>> I'm one of the contributors for the package ISAnalytics. We pushed some
>> changes we would like to be included in the release for bioconductor
>> 3.12 a couple of days ago but the build report still refers to the older
>> version, did we miss the deadline for updates or is it normal? Moreover,
>> by taking a look at the build report for the older version we noticed it
>> had failed on Windows, which is to us very odd, since we develop and
>> check the package on windows locally and we also have github automated
>> actions that perform the same checks on other machines and there were no
>> errors or warnings. From what we can see from the report it seems a
>> BiocParallel problem, could you give us feedback on this please? The
>> link to the build report:
>> https://urldefense.proofpoint.com/v2/url?u=http-3A__bioconductor.org_checkResults_devel_bioc-2DLATEST_ISAnalytics_&d=DwICAg&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=CHJeB1qsdWS04WzhReQyXwYrMCo0ZFIzgm8KFXf0dSU&s=gGAt_tpoNlVhB63K8IusN9oxHe9SQzGi6T3Drsx4jxU&e=
>> Thank you in advance,
>> Giulia Pais
>> _______________________________________________
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