User: phpaul2010

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phpaul20100
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Posts by phpaul2010

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getBM query to useEnsembl(biomart="snp"..) not responding
... The R script below worked several days ago, for the past two days  it hangs or occasionally returns  Error in value[[3L]](cond) :    Request to BioMart web service failed. Verify if you are still connected to the internet.  Alternatively the BioMart web service is temporarily down. R libraries and ...
bioconductor written 5 weeks ago by phpaul20100 • updated 5 weeks ago by Mike Smith2.1k
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Answer: A: ERROR: dependency 'GO.db' is not available for package 'systemPipeR'
... Thank you. I fixed the file path issue by editing the target files to the full path. I did find and switched to working from the Overview Vignette. Very useful. I did manage to crash Rstudio by resizing the plot window when executing seeFastqPlot(fqlist)but I think that may be a normal response d ...
written 16 months ago by phpaul20100
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Answer: A: ERROR: dependency 'GO.db' is not available for package 'systemPipeR'
... I used .Rlogin to add a writeable first entry in .libPaths. After a few more try/add code element/tray again I can actually run the package. I have been following the text/instructions in VAR-Seq workflow template: Some Descriptive Title of May 15,2016 The first issue was with the command args&l ...
written 16 months ago by phpaul20100
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Answer: A: ERROR: dependency 'GO.db' is not available for package 'systemPipeR'
... Just to continue > biocLite("AnnotationForge") > library(systemPipeR)   there is no package called ‘BBmisc’ > install.packages("BBmisc") > library(systemPipeR)   there is no package called ‘fail’ > install.packages("fail") > library(systemPipeR)   there is no package calle ...
written 16 months ago by phpaul20100
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Answer: A: ERROR: dependency 'GO.db' is not available for package 'systemPipeR'
... I have installed CRAN's hwriter and now get > library(systemPipeR) Loading required package: ShortRead Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : there is no package called ‘Category’ Error: package or namespace load failed for ‘systemPipeR’ > biocLite( ...
written 16 months ago by phpaul20100
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Answer: A: ERROR: dependency 'GO.db' is not available for package 'systemPipeR'
... Thank you for the input. I added a pointer to a personnel library in the .Rlogin. I proceeded as > source("https://bioconductor.org/biocLite.R") > biocLite("systemPipeR") I allowed to update all and to save in personnel library, this seemed to execute > biocValid() I was informed so ...
written 16 months ago by phpaul20100
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Answer: A: ERROR: dependency 'GO.db' is not available for package 'systemPipeR'
... Thanks for the suggestion, since my entry, I installed R 3.3.1 and updated all the R libraries, now I get > biocLite("tgirke/systemPipeR", build_vignettes=TRUE, dependencies=TRUE) . . . ERROR: dependency 'GO.db' is not available for package 'systemPipeR' * removing 'C:/.../Local/Temp/RtmpGG ...
written 16 months ago by phpaul20100
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ERROR: dependency 'GO.db' is not available for package 'systemPipeR'
... Trying to install bioClite 3.2 onto R 3.2.2 using biocLite("tgirke/systemPipeR", build_vignettes=TRUE, dependencies=TRUE) this appears to install all the packages then fails as * checking for file 'C:...\Temp\Rtmpmm0BY2\devtools278c2297552f\tgirke-systemPipeR-4b48c46/DESCRIPTION' ... OK * prepa ...
software error written 16 months ago by phpaul20100

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