Unable to load the package #685

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1. bersbersbers commented on Feb 12, 2021

   

   bersbersbers

   on Feb 12, 2021

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   Your installation of R seems to be missing the cairo library. This is listed as one of the imports at https://www.bioconductor.org/packages/release/bioc/html/ComplexHeatmap.html. You may need to provide more information on your environment, such as did you compile R yourself, or did you install it as a package?
2. jokergoo commented on Feb 12, 2021

   

   jokergoo

   on Feb 12, 2021

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   Maybe this link help:

   https://support.bioconductor.org/p/p133999/#p134005
3. kchen96 commented on Feb 12, 2021

   

   kchen96

   on Feb 12, 2021 via email

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   Thank you, Zuguang! I will give a try later.

   …

   --------------------------- Kirsten Chen PhD Candidate, Biomedical Sciences/Systems Biology University of California, San Francisco kirstenxchen@gmail.com<mailto:kirstenxchen@gmail.com> | 919-536-8885 From: Zuguang Gu <notifications@github.com> Reply-To: jokergoo/ComplexHeatmap <reply@reply.github.com> Date: Friday, February 12, 2021 at 9:38 AM To: jokergoo/ComplexHeatmap <ComplexHeatmap@noreply.github.com> Cc: kchen96 <kirstenxchen@gmail.com>, Author <author@noreply.github.com> Subject: Re: [jokergoo/ComplexHeatmap] Unable to load the package (#685) Maybe this link help: https://support.bioconductor.org/p/p133999/#p134005 — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub<#685 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AM2OZ62APZXH5XSMI2N3DEDS6VRR5ANCNFSM4XP5NEXQ>.
4. jokergoo

   closed this as completedon Feb 15, 2021
5. emilyvansyoc commented on Jun 3, 2021

   

   emilyvansyoc

   on Jun 3, 2021

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   FYI, I am getting the same error although I have used the ComplexHeatmap package before... Is this related to upgrading to R 4.0?
6. jokergoo commented on Jun 3, 2021

   

   jokergoo

   on Jun 3, 2021

   Last edited by jokergoo

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   I think it is related to the update of Cairo package or libcairo library.

   If you don't want to update these packages. You explicitly add raster_device = 'png'. Cairo is only used when the matrix is large.
7. emilyvansyoc commented on Jun 3, 2021

   

   emilyvansyoc

   on Jun 3, 2021

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   Well my current issue is that I can't load the ComplexHeatmap package... getting the same error message as the first post above:

   require(Cairo)
   Loading required package: Cairo
   Error: package or namespace load failed for ‘Cairo’:
   .onLoad failed in loadNamespace() for 'Cairo', details:
   call: dyn.load(file, DLLpath = DLLpath, ...)
   error: unable to load shared object '/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Cairo/libs/Cairo.so':
   dlopen(/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Cairo/libs/Cairo.so, 6): Library not loaded: /opt/X11/lib/libXrender.1.dylib
   Referenced from: /Library/Frameworks/R.framework/Versions/4.0/Resources/library/Cairo/libs/Cairo.so
   Reason: image not found
   Warning message:
   package ‘Cairo’ was built under R version 4.0.2
8. emilyvansyoc commented on Jun 3, 2021

   

   emilyvansyoc

   on Jun 3, 2021

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   Whoops - this one

   require(ComplexHeatmap)
   Loading required package: ComplexHeatmap
   Error: package or namespace load failed for ‘ComplexHeatmap’:
   .onLoad failed in loadNamespace() for 'Cairo', details:
   call: dyn.load(file, DLLpath = DLLpath, ...)
   error: unable to load shared object '/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Cairo/libs/Cairo.so':
   dlopen(/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Cairo/libs/Cairo.so, 6): Library not loaded: /opt/X11/lib/libXrender.1.dylib
   Referenced from: /Library/Frameworks/R.framework/Versions/4.0/Resources/library/Cairo/libs/Cairo.so
   Reason: image not found
   Warning message:
   package ‘ComplexHeatmap’ was built under R version 4.0.3
9. jokergoo commented on Jun 3, 2021

   

   jokergoo

   on Jun 3, 2021

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   Then I think you just simply install a new version of XQuartz and restart your R session.

   https://izziswift.com/include-cairo-r-on-a-mac/

   👍React with 👍1Reacted by Kalani Ratnasiri
10. emilyvansyoc commented on Jun 3, 2021

    

    emilyvansyoc

    on Jun 3, 2021

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    Okay, that worked! Up and running. Thanks for the fast reply! :)