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📎 (demo) list of known issues & resolutions

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Ayushi Agrawal 2024-11-13 21:51:15 -08:00 • committed by GitHub
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intro-sc-atac-seq/ArchR_demo_issues_and_resolutions.txt Normal file
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ArchR demo
Error:
Warnings/errors during plotting
Resolution:
require(devtools)
install_version("ggplot2", version = "3.4.4", repos = "http://cran.us.r-project.org")
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Error:
I get the following error message while installing ArchR-> ERROR: dependency ‘chromVAR’ is not available for package ‘ArchR’
* removing ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/ArchR’
Warning messages:
1: In i.p(...) :
installation of package ‘chromVAR’ had non-zero exit status
2: In i.p(...) :
installation of package ‘/var/folders/hl/b2_4yd491xzfzk8_dt0nm1140000gn/T//RtmpMLZpiv/file7b8448c4f5f8/ArchR_1.0.2.tar.gz’ had non-zero exit status
Resolution:
1. You would need to install chromVar and then re-run ArchR installation: https://bioconductor.org/packages/release/bioc/html/chromVAR.html
2. One of the participants had another issue. chromVar isntllation complained about gfortan. If so, please follow the resolution here: I found this issue that might help: https://www.biostars.org/p/9579258/
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