[Bioc-devel] paxtoolsr Bioconductor Push Issues

[Turaga, Nitesh]

Augustin,

I will reenable the hook for you now.

You will not be able to push large files after this.

Best,

Nitesh

> On Sep 24, 2018, at 12:00 PM, Augustin Luna <augustin_luna using hms.harvard.edu> wrote:
> 
> I just pushed. I guess we'll soon see if my updates fix some problems
> have been happening with the package.
> 
> Augustin Luna
> 
> On Mon, Sep 24, 2018 at 11:24 AM, Turaga, Nitesh
> <Nitesh.Turaga using roswellpark.org> wrote:
>> Hi Augustin,
>> 
>> You should be able to push to your repository now.
>> 
>> Please notify me once you have been able to push with the new .jar file, and also make sure your version bump (1.15.1 —> 1.15.2) is correct.
>> 
>> Best,
>> 
>> Nitesh
>> 
>> 
>>> On Sep 21, 2018, at 10:10 AM, Augustin Luna <augustin_luna using hms.harvard.edu> wrote:
>>> 
>>> As far as Git is concerned yes a change was made, but it was probably
>>> a move or a rename. So how do we move forward? paxtoolsr has been
>>> greater than 5MB for all of its history (4-5 years) on Bioconductor;
>>> the package cannot exist without that jar.
>>> 
>>> Thanks,
>>> Augustin Luna
>>> 
>>> On Thu, Sep 20, 2018 at 4:50 PM, Turaga, Nitesh
>>> <Nitesh.Turaga using roswellpark.org> wrote:
>>>> Hi Augustin,
>>>> 
>>>> There is a software package size limit to Bioconductor packages which is 5 MB. You cannot push because the pre-receive hook on the Bioconductor git repo is catching that it’s a bad commit.
>>>> 
>>>> I guess you are making a change to the jar file for the first time after the git-hooks have been put in place(about 9-10 months ago) to make sure that packages are obeying the 5MB limit. Is this accurate?
>>>> 
>>>> Best,
>>>> 
>>>> Nitesh
>>>> 
>>>>> On Sep 20, 2018, at 5:09 PM, Augustin Luna <augustin_luna using hms.harvard.edu> wrote:
>>>>> 
>>>>> I've made needed changes to paxtoolsr for the next release. I cannot
>>>>> push to Bioconductor; see below. paxtoolsr is essentially a wrapper
>>>>> around the jar with helper functions; the jar has been there since the
>>>>> beginning. Please advise.
>>>>> 
>>>>> Augustin Luna
>>>>> 
>>>>> Writing objects: 100% (1252/1252), 22.33 MiB | 1.65 MiB/s, done.
>>>>> Total 1252 (delta 988), reused 741 (delta 596)
>>>>> remote: Resolving deltas: 100% (988/988), completed with 80 local objects.
>>>>> remote: Error: file larger than 5 Mb.
>>>>> remote:
>>>>> remote:     File name: 'inst/java/paxtools-4.3.1.jar'
>>>>> remote:     File size: 24.5 Mb
>>>>> remote:
>>>>> remote: Please see Biocondcutor guidelines
>>>>> remote: https://bioconductor.org/developers/package-guidelines/
>>>>> remote:
>>>>> To git.bioconductor.org:packages/paxtoolsr.git
>>>>> ! [remote rejected] master -> master (pre-receive hook declined)
>>>>> error: failed to push some refs to
>>>>> 'git using git.bioconductor.org:packages/paxtoolsr.git'
>>>>> 
>>>>> _______________________________________________
>>>>> Bioc-devel using r-project.org mailing list
>>>>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>>>> 
>>>> 
>>>> 
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>> 
>> 
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