[Bioc-devel] [External] Re: updating package on the development version
Hi Martin, Thank you so much for your suggestions. I fixed the errors as below and then ran the build/install/check commands and didn't get any error. Submitting the package, hoping by tomorrow everything should pass OK. Regards, Bhakti
?On 6/20/20, 9:29 AM, "Martin Morgan" <mtmorgan.bioc at gmail.com> wrote:
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)
Martin
On 6/19/20, 2:53 PM, "Bioc-devel on behalf of Dwivedi, Bhakti" <bioc-devel-bounces at r-project.org on behalf of bhakti.dwivedi at 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
Regards,
Bhakti
From: Shepherd, Lori <Lori.Shepherd at RoswellPark.org>
Sent: Friday, June 19, 2020 7:00 AM
To: Dwivedi, Bhakti <bhakti.dwivedi at emory.edu>; bioc-devel at r-project.org <bioc-devel at r-project.org>
Subject: [External] Re: updating package on the development version
Sent: Friday, June 19, 2020 7:00 AM
To: Dwivedi, Bhakti <bhakti.dwivedi at emory.edu>; bioc-devel at r-project.org <bioc-devel at r-project.org>
Subject: [External] Re: updating package on the development version
This message was sent securely using Zix?<http://www.zixcorp.com/get-started/> 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. https://stat.ethz.ch/pipermail/bioc-devel/2020-June/016923.html Please check the build reports for the version numbers that are being used to build the package. http://bioconductor.org/checkResults/ Keeping in mind there can be up to a 48 hour delay to see the results as described here: http://bioconductor.org/developers/how-to/troubleshoot-build-report/ Cheers, 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 at r-project.org> on behalf of Dwivedi, Bhakti <bhakti.dwivedi at emory.edu> Sent: Thursday, June 18, 2020 4:24 PM To: bioc-devel at r-project.org <bioc-devel at r-project.org> Subject: [Bioc-devel] updating package on the development version Hi, 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? Regards, Bhakti ________________________________ This e-mail message (including any attachments) is for t...{{dropped:14}} _______________________________________________ Bioc-devel at r-project.org mailing list https://secure-web.cisco.com/1xWLS8YSp5LYon3qCzch7rs4S4uKCBtoj3QZwWWgOSRG3p_sJjUtWSYHSMSd8bAT1JLRQR-R9gnlEoOX5rhDZBVGveHyJoXNysikg5MopCKxak95lUM-HMrYu5tYPoG2RMWVFD5AM1CjHjMoScOaadtgDQVfCGZ7et1woqO8TlFWiFsjVpBy6S832U6Xb5bhvky9gtyWw88Ucd9qaclewJiLa0C4te5MgdolAkYOg2Qsgm9W4T42aq8cCsQputGOkc4dgsYnT4j3zqn5IEOdP_bUcC2WA5nIEnox7kKC8aBYid89hEqS_e-2hLzoGjpl9quhoS5iv65pW2eYSGKGaWA/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel This email message may contain legally privileged and/or confidential information. If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited. If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you. This message was secured by Zix<http://www.zixcorp.com>?. ________________________________ This e-mail message (including any attachments) is for the sole use of the intended recipient(s) and may contain confidential and privileged information. If the reader of this message is not the intended recipient, you are hereby notified that any dissemination, distribution or copying of this message (including any attachments) is strictly prohibited. If you have received this message in error, please contact the sender by reply e-mail message and destroy all copies of the original message (including attachments).