[Bioc-devel] DMCHMM problems reported in the Multiple platform build/check report for BioC 3.14

Wed Feb 16 20:27:17 CET 2022

I have already fixed the problem; when I try to push the changes it says everything is uptodate. 

> On Feb 16, 2022, at 11:14 AM, Kern, Lori <Lori.Shepherd using RoswellPark.org> wrote:
> 
> There are no changes on the RELEASE_3_14 branch.  
> You need to checkout the RELEASE_3_14 branch.  Commit the necessary changes to fix the ERROR. Commit a version bump to 1.16.1.  And then push back to RELEASE_3_14 
> 
> 
> 
> Lori Shepherd - Kern
> Bioconductor Core Team
> Roswell Park Comprehensive Cancer Center
> Department of Biostatistics & Bioinformatics
> Elm & Carlton Streets
> Buffalo, New York 14263
> From: Farhad Shokoohi <shokoohi using icloud.com>
> Sent: Wednesday, February 16, 2022 1:58 PM
> To: Kern, Lori <Lori.Shepherd using RoswellPark.org>
> Cc: bioc-devel using r-project.org <bioc-devel using r-project.org>
> Subject: Re: [Bioc-devel] DMCHMM problems reported in the Multiple platform build/check report for BioC 3.14
>  
> Hello
> 
> I think I have fixed the problem; see the log; However, I do not know how to make sure everything is up-to-date. 
> Best,
> 
> farhad using Farhads-iMac DMCHMM %  git push upstream master
> Everything up-to-date
> farhad using Farhads-iMac DMCHMM %  git push origin master
> Everything up-to-date
> farhad using Farhads-iMac DMCHMM % git checkout RELEASE_3_14
> Already on 'RELEASE_3_14'
> Your branch is up to date with 'origin/RELEASE_3_14'.
> farhad using Farhads-iMac DMCHMM % git merge upstream/RELEASE_3_14
> Already up to date.
> farhad using Farhads-iMac DMCHMM % git merge origin/RELEASE_3_14
> Already up to date.
> farhad using Farhads-iMac DMCHMM % git push upstream RELEASE_3_14
> Everything up-to-date
> farhad using Farhads-iMac DMCHMM % git push origin RELEASE_3_14
> Everything up-to-date
> farhad using Farhads-iMac DMCHMM % git push upstream RELEASE_3_14
> Everything up-to-date
> farhad using Farhads-iMac DMCHMM % git push origin RELEASE_3_14
> Everything up-to-date
> farhad using Farhads-iMac DMCHMM % git checkout RELEASE_3_14
> Already on 'RELEASE_3_14'
> Your branch is up to date with 'origin/RELEASE_3_14'.
> 
> 
> 
>> On Feb 7, 2022, at 10:41 AM, Kern, Lori <Lori.Shepherd using RoswellPark.org <mailto:Lori.Shepherd using RoswellPark.org>> wrote:
>> 
>> As often stated Bioconductor has two different branches a RELEASE_3_14 and a devel branch.  You have pushed changes only to the master branch that corresponds to devel.  
>> 
>> You must also push changes to the RELEASE_3_14 branch to fix the Bioc 3.14 version of the package. 
>> 
>> See: 
>> http://bioconductor.org/developers/how-to/git/bug-fix-in-release-and-devel/ <http://secure-web.cisco.com/1-QI2WWddDLwW1h9mtghZtNCZxpol-AqkiYkRg3CIz0Ot18YYS9tzWRTD5WRo_D4JbbSzldhyf5iw65sRUukPZYNYhhPVMnyoZkFk4SJSOQ5J1QoZ37mM3tfj4ShtODqlVvSZZzElSi4gLlIOObXNOgt0uYxmm1kS1mendUdmluYc3PFdqL_iIk0hsH6MroWBHQJs0oiK184k25oIzOFwr1oiOAUSdD4AC0sgeZDKVVGjZD0ohK4lkANmVkJyKP_mI3Yn1AHiXSTNV7Rg6nDYEHXxwGK4TE9dQwBzg3lOvYNRsHxml6FMmqJa-X-Vy5pE/http%3A%2F%2Fbioconductor.org%2Fdevelopers%2Fhow-to%2Fgit%2Fbug-fix-in-release-and-devel%2F>
>> 
>> Cheers, 
>> 
>> 
>> Lori Shepherd - Kern
>> Bioconductor Core Team
>> Roswell Park Comprehensive Cancer Center
>> Department of Biostatistics & Bioinformatics
>> Elm & Carlton Streets
>> Buffalo, New York 14263
>> From: Bioc-devel <bioc-devel-bounces using r-project.org <mailto:bioc-devel-bounces using r-project.org>> on behalf of Farhad Shokoohi via Bioc-devel <bioc-devel using r-project.org <mailto:bioc-devel using r-project.org>>
>> Sent: Monday, February 7, 2022 1:35 PM
>> To: bioc-devel using r-project.org <mailto:bioc-devel using r-project.org> <bioc-devel using r-project.org <mailto:bioc-devel using r-project.org>>
>> Subject: Re: [Bioc-devel] DMCHMM problems reported in the Multiple platform build/check report for BioC 3.14
>>  
>> Hello,
>> I have fixed the problem and uploaded the new version of my package. 
>> I don’t understand why I get the following message :
>> 
>> 
>> 
>> [This is an automatically generated email. Please don't reply.]
>> 
>> Hi DMCHMM maintainer,
>> 
>> According to the Multiple platform build/check report for BioC 3.14,
>> the DMCHMM package has the following problem(s):
>> 
>>  o ERROR for 'R CMD build' on nebbiolo2. See the details here:
>>      https://secure-web.cisco.com/1orvjT1F0A8Kb2qBMadMQzdTu5DcniWrLBCeXh-uOCUt8YYDSo6oCzNxe0Xn0tf-okh7lRqBuQ842Cz347vLeopiMrcBGggpW9t5HeiDD-Bc2p2yzYfJdlCM7u-ZxOh7IDTmHtgp5EVx1ly05kIh5W5P3LVykoZd9r5n29mlh1TLEBHZ1CYcIUz5IiFLILUQMcRImRCf0p2Ltnun__v6T1U70OGKXbAuaRXiRBw5fNf1gIbySrkyPrvatg3o1HgXaRNsH1apdsVjoUmyznlRD3lkxxaK48rkq8QHmccIT5NOoaX41MAd61JEfA2DxPOhD/https%3A%2F%2Fmaster.bioconductor.org%2FcheckResults%2F3.14%2Fbioc-LATEST%2FDMCHMM%2Fnebbiolo2-buildsrc.html <https://secure-web.cisco.com/1orvjT1F0A8Kb2qBMadMQzdTu5DcniWrLBCeXh-uOCUt8YYDSo6oCzNxe0Xn0tf-okh7lRqBuQ842Cz347vLeopiMrcBGggpW9t5HeiDD-Bc2p2yzYfJdlCM7u-ZxOh7IDTmHtgp5EVx1ly05kIh5W5P3LVykoZd9r5n29mlh1TLEBHZ1CYcIUz5IiFLILUQMcRImRCf0p2Ltnun__v6T1U70OGKXbAuaRXiRBw5fNf1gIbySrkyPrvatg3o1HgXaRNsH1apdsVjoUmyznlRD3lkxxaK48rkq8QHmccIT5NOoaX41MAd61JEfA2DxPOhD/https%3A%2F%2Fmaster.bioconductor.org%2FcheckResults%2F3.14%2Fbioc-LATEST%2FDMCHMM%2Fnebbiolo2-buildsrc.html> <https://secure-web.cisco.com/1orvjT1F0A8Kb2qBMadMQzdTu5DcniWrLBCeXh-uOCUt8YYDSo6oCzNxe0Xn0tf-okh7lRqBuQ842Cz347vLeopiMrcBGggpW9t5HeiDD-Bc2p2yzYfJdlCM7u-ZxOh7IDTmHtgp5EVx1ly05kIh5W5P3LVykoZd9r5n29mlh1TLEBHZ1CYcIUz5IiFLILUQMcRImRCf0p2Ltnun__v6T1U70OGKXbAuaRXiRBw5fNf1gIbySrkyPrvatg3o1HgXaRNsH1apdsVjoUmyznlRD3lkxxaK48rkq8QHmccIT5NOoaX41MAd61JEfA2DxPOhD/https%3A%2F%2Fmaster.bioconductor.org%2FcheckResults%2F3.14%2Fbioc-LATEST%2FDMCHMM%2Fnebbiolo2-buildsrc.html <https://secure-web.cisco.com/1orvjT1F0A8Kb2qBMadMQzdTu5DcniWrLBCeXh-uOCUt8YYDSo6oCzNxe0Xn0tf-okh7lRqBuQ842Cz347vLeopiMrcBGggpW9t5HeiDD-Bc2p2yzYfJdlCM7u-ZxOh7IDTmHtgp5EVx1ly05kIh5W5P3LVykoZd9r5n29mlh1TLEBHZ1CYcIUz5IiFLILUQMcRImRCf0p2Ltnun__v6T1U70OGKXbAuaRXiRBw5fNf1gIbySrkyPrvatg3o1HgXaRNsH1apdsVjoUmyznlRD3lkxxaK48rkq8QHmccIT5NOoaX41MAd61JEfA2DxPOhD/https%3A%2F%2Fmaster.bioconductor.org%2FcheckResults%2F3.14%2Fbioc-LATEST%2FDMCHMM%2Fnebbiolo2-buildsrc.html>>
>> 
>> Please take the time to address this by committing and pushing
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>> 
>> Notes:
>> 
>>  * This was the status of your package at the time this email was sent to you.
>>    Given that the online report is updated daily (in normal conditions) you
>>    could see something different when you visit the URL(s) above, especially if
>>    you do so several days after you received this email.
>> 
>>  * It is possible that the problems reported in this report are false positives,
>>    either because another package (from CRAN or Bioconductor) breaks your
>>    package (if yours depends on it) or because of a Build System problem.
>>    If this is the case, then you can ignore this email.
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