Thank you for bringing this to our attention. If the package is building clear on the malbec2 and tokay2 platforms then you can ignore this ERROR for now.
We will look into the CAIRO installation on the MACOS. Please note merida2 will be removed shortly and our main Mac builder is now celaya2. Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 ________________________________ From: Christian Mertes <mer...@in.tum.de> Sent: Tuesday, March 5, 2019 10:24:40 AM To: Felix Brechtmann; Shepherd, Lori Cc: bioc-devel@r-project.org Subject: Re: Fwd: failing package OUTRIDER Dear Lori, I checked our package OUTRIDER on the devel branch and I guess that the error arises from a misconfiguration on the OSX platform. It looks like a problem with the cairo library/package on the OSX system. �� 1. Error: plotting (@test_plotting.R#9) ������������������������������������ .onLoad failed in loadNamespace() for 'Cairo', details: call: dyn.load(file, DLLpath = DLLpath, ...) error: unable to load shared object '/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Cairo/libs/Cairo.so': dlopen(/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Cairo/libs/Cairo.so, 6): Symbol not found: _FcConfigGetCurrent Referenced from: /Library/Frameworks/R.framework/Versions/3.6/Resources/library/Cairo/libs/Cairo.so Expected in: flat namespace in /Library/Frameworks/R.framework/Versions/3.6/Resources/library/Cairo/libs/Cairo.so A detailed error message can be found here: http://bioconductor.org/checkResults/devel/bioc-LATEST/OUTRIDER/merida2-checksrc.html This same error was already reported in 2015 and fixed pretty fix but without stating the bugfix: https://stat.ethz.ch/pipermail/bioc-devel/2015-June/007644.html And we are also not the only package having the problem: https://bioc.ism.ac.jp/checkResults/devel/bioc-LATEST/CATALYST/merida2-checksrc.html https://bioc.ism.ac.jp/checkResults/devel/bioc-LATEST/scde/merida2-checksrc.html https://bioc.ism.ac.jp/checkResults/devel/bioc-LATEST/singscore/merida2-checksrc.html ... Let me know if you need any more information on this and if I can help solving this. Best, Chriss PS: I also updated the package to remove the warning. Am 2/23/2019 um 2:49 AM schrieb Felix Brechtmann: Hi, Can you please check this. Felix -------- Forwarded Message -------- Subject: failing package OUTRIDER Date: Fri, 22 Feb 2019 13:32:52 +0000 From: Shepherd, Lori <lori.sheph...@roswellpark.org><mailto:lori.sheph...@roswellpark.org> To: brech...@in.tum.de<mailto:brech...@in.tum.de> <brech...@in.tum.de><mailto:brech...@in.tum.de> Dear OUTRIDER maintainer, I'd like to bring to your attention that the OUTRIDER package is failing to pass 'R CMD check' on all platforms in the devel version of Bioconductor (3.9) http://bioconductor.org/checkResults/devel/bioc-LATEST/OUTRIDER/ Would you mind taking a look at this? Don't hesitate to ask on the bioc-devel@r-project.org<mailto:bioc-devel@r-project.org> mailing list if you have any question or need help. While devel is a place to experiment with new features, we expect packages to build and check cleanly in a reasonable time period and not stay broken for any extended period of time. The package has been failing since 01/25/19 If no action is taken over the next few weeks we will begin the deprecation process for your package. Thank you for your time and effort, and your continued contribution to Bioconductor. Pleae be advised that Bioconductor has switched from svn to Git. Some helpful links can be found here: https://bioconductor.org/developers/how-to/git/ http://bioconductor.org/developers/how-to/git/bug-fix-in-release-and-devel/ Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 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. -- Christian Mertes | PhD Student / Lab Administrator Gagneur Lab - Computational Genomics I12 - Department of Informatics Technical University of Munich Boltzmannstr. 3, 85748 Garching, Germany mer...@in.tum.de<mailto:mer...@in.tum.de> | http://gagneurlab.in.tum.de This email message may contain legally privileged and/or confidential information. 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