User: jordan.xanthopoulos

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Posts by jordan.xanthopoulos

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Comment: C: write.flowSet new filenames bug
... ok, you gave me the wrong command, the correct one is devtools::install_github("RGLab/flowCore",ref="trunk") ...
written 9 months ago by jordan.xanthopoulos0
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Comment: C: write.flowSet new filenames bug
... I get a Error in stop(github_error(request)) : 404: Not Found (404) when i try to run the command you gave me. Also the link you gave is broken. ...
written 9 months ago by jordan.xanthopoulos0
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Comment: C: write.flowSet new filenames bug
... does that mean I can install the package via the standard commands and have the problem fixed? Thanks. ...
written 9 months ago by jordan.xanthopoulos0
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write.flowSet new filenames bug
... I am trying to pass my own custom filename for the new file which i create with the d = getData(gs,parent) command. The problem is, when I only have one file, there is an increment 1_ in front of my custom name. I print both the length of d and my new custom name and they have the same length (1). ...
flowcore write.flowset() written 9 months ago by jordan.xanthopoulos0 • updated 9 months ago by Jiang, Mike1.0k
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Exporting FCS files from GatingSet
... I am trying to gate a flowSet and then take the gateSet and export it to separate fcs files, which should have only the data I chose to gate. My commands are as follow. ####Read the fcs files with the names i want#### s <- read.flowSet(path = path,files = secondary_datasets,transformation = FA ...
flowcore opencyto gating flowset written 9 months ago by jordan.xanthopoulos0 • updated 9 months ago by Jiang, Mike1.0k
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Comment: C: Ability to use a particular package via Docker
... yeah, the thing is I want to have a ready-to-go image of my R app for anyone, not just locally. Thanks for the replies. I am closing the thread   ...
written 13 months ago by jordan.xanthopoulos0
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Comment: C: Ability to use a particular package via Docker
... Hey, thank you for the replies. I've come up with more questions. RUN Rscript -e 'source("http://bioconductor.org/biocLite.R");library(BiocInstaller); biocLite("flowCore", dep = TRUE)' what i have added to the rocker dockerfile are these C libraries libxml2-dev \     libxml2 \     mesa-common-dev ...
written 14 months ago by jordan.xanthopoulos0
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Comment: C: Ability to use a particular package via Docker
... I fixed the XML problem. There are more problems to be solved though. The HDF5 package is no longer on CRAN. What am I supposed to do? http://imgur.com/a/aHFcM ...
written 14 months ago by jordan.xanthopoulos0
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Comment: C: Ability to use a particular package via Docker
... http://imgur.com/a/7DOJM I managed only to catch the XML. Can you understand what the problem may be? I can see the libxml2 is indeed missing. How can I add this via the dockerfile? ...
written 14 months ago by jordan.xanthopoulos0
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Comment: C: Ability to use a particular package via Docker
... http://imgur.com/a/qiUHx These are the final lines. Note that the only steps I have are, adding the rocker/shiny, adding some CRAN libraries (successfully) and then running this line to get my bioconductor package. ...
written 14 months ago by jordan.xanthopoulos0

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