[Bioc-devel] [External] Re: updating package on the development version

Martin Morgan mtmorg@n@b|oc @end|ng |rom gm@||@com
Sat Jun 20 15:29:41 CEST 2020

Does your vignette try to install a package? It should not.

You can delete the 'lock file with

path = "/Library/Frameworks/R.framework/Versions/4.0/Resources/library/00LOCK-GISPA"
unlink(path, recursive = TRUE)


On 6/19/20, 2:53 PM, "Bioc-devel on behalf of Dwivedi, Bhakti" <bioc-devel-bounces using r-project.org on behalf of bhakti.dwivedi using emory.edu> wrote:

    Thank you for your response.

    Quick question, I am getting the warning and below error message. any suggestions or is there a link that I can follow to get help and fix it?

    ** installing vignettes
    Warning in file(con, "w") :
      cannot open file '/Library/Frameworks/R.framework/Versions/4.0/Resources/library/00LOCK-GISPA/00new/GISPA/doc/index.html': No such file or directory
    Error in file(con, "w") : cannot open the connection


    From: Shepherd, Lori <Lori.Shepherd using RoswellPark.org>
    Sent: Friday, June 19, 2020 7:00 AM
    To: Dwivedi, Bhakti <bhakti.dwivedi using emory.edu>; bioc-devel using r-project.org <bioc-devel using r-project.org>
    Subject: [External] Re: updating package on the development version

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    Please see this post indicating that we are having trouble with our website and are in process of fixing it.  We have located the issue and pushed a fix and once applied the landing pages should generate properly.


    Please check the build reports for the version numbers that are being used to build the package.


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    Lori Shepherd

    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> on behalf of Dwivedi, Bhakti <bhakti.dwivedi using emory.edu>
    Sent: Thursday, June 18, 2020 4:24 PM
    To: bioc-devel using r-project.org <bioc-devel using r-project.org>
    Subject: [Bioc-devel] updating package on the development version


    I am trying to update previous release of my package (GISPA) on the development version.

    I pushed the changes and new release GISPA 1.13.1 following https://secure-web.cisco.com/16G6QGHF8mpcsjsZBAAOMWj_a4_z0hmCZlj_TnB4TkGbw3lcmQkHHEjOqoyzLjoOMRn1aXjkTjb5avdzEYK8TvzOinzWcd9qWMiZtKViQYb59qlnna0b2zm1kpo9g5N-CAfehjdWj1aJjXXzU0Hr8DFvi9egMpJ8mJfKVtjZIxiNHpmVpAVpylYQTaAhqJ00j8m4g_-g32S9NI3JBhD0t4AqG-FOe6_XBx_MtqxawqmeCbMmzb7ACMy2fDyMtMWJN_8CFfp0MxJHYuURFn_zJFFrA_8OC5MS263jFlJ4tkGIjjP4i3l23Pk98aN0pleohwwTq6H5r4yXwIUIJZ1UtYixHkMKeMzfgh7Mx2jvPXCs/https%3A%2F%2Fbioconductor.org%2Fdevelopers%2Fhow-to%2Fgit%2Fsync-existing-repositories%2F

    But, I do not see the change on the bioconductor development version http://secure-web.cisco.com/1BfCJ7lm3FxR9215Gg0wJ4F_f-OUbGZlfSX7Ht1DBVyLt-CZZV-KC00A6xzrjCgeuhtuBWXSLpVmnjtVS2OXstGp5uPIT9ZrzhInLClCHaban0Vu4Cgjcat6pKhyv0_mkXT3BDemwUsYEc-n5Ci7Hg5ZyWVJNiFi8RXqmJZ7jivCEJbsbmPLkns3Aqlvm7sIpUsbyrHU_3sZB9ThrXyRAg1i6MYujiums1jeOJyKkH8xJ8rzlg4SZosumRATLEpNxRcqx0vJYGendXkAFaOLdducAMIKK1cFguQP3GuBIZGWXXTBajVSvf3AtXUEkgCGHMX_okMSo4UDIdulKBzh1bxvq1SjHw4IhYlMYjTUg9KI/http%3A%2F%2Fbioconductor.org%2Fpackages%2Fdevel%2Fbioc%2Fhtml%2FGISPA.html. Where can I view the changes and make sure it passed all the checks?



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