I am trying to build IGV (a new submission) on windows (tokay2) after linux and macOS build clean. IGV needs its base class package, BrowserViz, at version >= 2.0, whose build report is OK for install, build, and build bin. BrowserViz 2.0.11 fails check, probably because now web browser is available on the build machines. The IGV build on windows reports an error I have not seen before. Can anyone help? What does ?masked? mean in this context - not of a function, method or variable, but apparently of the entire package? - Paul * installing *source* package 'IGV' ... ** R ** inst ** byte-compile and prepare package for lazy loading Warning: version 2.0.11 of 'BrowserViz' masked by 1.11.0 in C:/Users/pkgbuild/packagebuilder/workers/jobs/704/R-libs Error : package 'BrowserViz' 1.11.0 was found, but >= 2.0 is required by 'IGV'
[Bioc-devel] right version "masked" by wrong version - not sure what "masked means"
3 messages · Shepherd, Lori, Paul Shannon
2 days later
Generally this means that there are multiple locations where the package is installed - as determined by .libPaths() - The single package builder specifies a package specific place to install packages that are not installed by the daily builder C:/Users/pkgbuild/packagebuilder/workers/jobs/704/R-libs The package that was installled in this directory was masking the version used by the default location - This is an issue on our end and if it occurs you should notify a Bioconductor team member. Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263
From: Bioc-devel <bioc-devel-bounces at r-project.org> on behalf of Paul Shannon <paul.thurmond.shannon at gmail.com>
Sent: Tuesday, April 10, 2018 7:25:54 PM
To: bioc-devel
Subject: [Bioc-devel] right version "masked" by wrong version - not sure what "masked means"
Sent: Tuesday, April 10, 2018 7:25:54 PM
To: bioc-devel
Subject: [Bioc-devel] right version "masked" by wrong version - not sure what "masked means"
I am trying to build IGV (a new submission) on windows (tokay2) after linux and macOS build clean. IGV needs its base class package, BrowserViz, at version >= 2.0, whose build report is OK for install, build, and build bin. BrowserViz 2.0.11 fails check, probably because now web browser is available on the build machines. The IGV build on windows reports an error I have not seen before. Can anyone help? What does ?masked? mean in this context - not of a function, method or variable, but apparently of the entire package? - Paul * installing *source* package 'IGV' ... ** R ** inst ** byte-compile and prepare package for lazy loading Warning: version 2.0.11 of 'BrowserViz' masked by 1.11.0 in C:/Users/pkgbuild/packagebuilder/workers/jobs/704/R-libs Error : package 'BrowserViz' 1.11.0 was found, but >= 2.0 is required by 'IGV' _______________________________________________ Bioc-devel at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-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.
Thanks, Lori. The package masking problem went away a few days ago. - Paul
On Apr 13, 2018, at 10:31 AM, Shepherd, Lori <Lori.Shepherd at RoswellPark.org> wrote: Generally this means that there are multiple locations where the package is installed - as determined by .libPaths() - The single package builder specifies a package specific place to install packages that are not installed by the daily builder C:/Users/pkgbuild/packagebuilder/workers/jobs/704/R-libs The package that was installled in this directory was masking the version used by the default location - This is an issue on our end and if it occurs you should notify a Bioconductor team member. Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 From: Bioc-devel <bioc-devel-bounces at r-project.org> on behalf of Paul Shannon <paul.thurmond.shannon at gmail.com> Sent: Tuesday, April 10, 2018 7:25:54 PM To: bioc-devel Subject: [Bioc-devel] right version "masked" by wrong version - not sure what "masked means" I am trying to build IGV (a new submission) on windows (tokay2) after linux and macOS build clean. IGV needs its base class package, BrowserViz, at version >= 2.0, whose build report is OK for install, build, and build bin. BrowserViz 2.0.11 fails check, probably because now web browser is available on the build machines. The IGV build on windows reports an error I have not seen before. Can anyone help? What does ?masked? mean in this context - not of a function, method or variable, but apparently of the entire package? - Paul * installing *source* package 'IGV' ... ** R ** inst ** byte-compile and prepare package for lazy loading Warning: version 2.0.11 of 'BrowserViz' masked by 1.11.0 in C:/Users/pkgbuild/packagebuilder/workers/jobs/704/R-libs Error : package 'BrowserViz' 1.11.0 was found, but >= 2.0 is required by 'IGV'
_______________________________________________ Bioc-devel at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-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.