I don't think it's feasible to do what you want. At a very basic level,
R assumes it has files distributed across a file system (mostly below
the R.home() directory). Faking that in a single standalone executable
may be possible but wouldn't be easy.
If running a server isn't possible, then I'd suggest you work on
automating a regular R installation, and put the things you want to run
into scripts that make use of it. Two steps instead of one.
Duncan Murdoch
On 07/08/2020 5:10 p.m., Knecht, Logan wrote:
Unfortunately, that is not a solution due to the constraints of file sizes
associated with the run time operations as well as specific execution workflows.
I need to make this a packaged distributable and the only blocker for it at the
moment is not being able to successfully bundle R as a standalone binary.
Warm Regards,
Logan Knecht
2020/08/07 午前4:50 に、"Duncan Murdoch" <murdoch.dun...@gmail.com> を書き込みました:
Wouldn't it be easier to set up a Shiny host system, and just give your
collaborators a URL to the Shiny app running there?
Duncan Murdoch
On 06/08/2020 5:32 p.m., Knecht, Logan wrote:
> Hello all,
>
> ===== The short version =====
>
> I am trying to build a standalone version for R so that I can bundle and
package a self-hosted environment for a shiny app. There are reasons for this
decision, but it will only distract from the discussion.
>
> The inspiration for this comes from here:
>
https://urldefense.proofpoint.com/v2/url?u=https-3A__www.youtube.com_watch-3Fv-3DARrbbviGvjc&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=yLJd2IoXkBkWMIBcuv1k7wCSdpKnUqiEZDh_EJHHU08&m=6GL5xCevUT873KGyFsJhVe44s-QATomA_BHxDVctiOA&s=yHknXdnol-gw1NqdlK0Md_dn9jW_NU6DlTZJ0aoKnxc&e=
> and here
>
https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_dirkschumacher_r-2Dshiny-2Delectron&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=yLJd2IoXkBkWMIBcuv1k7wCSdpKnUqiEZDh_EJHHU08&m=6GL5xCevUT873KGyFsJhVe44s-QATomA_BHxDVctiOA&s=iCgG_D3ngLrfXykUszOieQIRiwj5prEN3c0gFb8V_1g&e=
>
> I have tried these solutions, to no avail as I repeatedly encounter
issues with the process. Some issues have been difficulties importing libraries
after repeating their steps, others have been issues with missing dynamic
libraries that aren't available when I build from source.
>
> ===== Questions =====
>
> - How is the R binary at this link created?
> - Link:
https://urldefense.proofpoint.com/v2/url?u=https-3A__cloud.r-2Dproject.org_bin_macosx_R-2D4.0.2.pkg&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=yLJd2IoXkBkWMIBcuv1k7wCSdpKnUqiEZDh_EJHHU08&m=6GL5xCevUT873KGyFsJhVe44s-QATomA_BHxDVctiOA&s=pUj6yAcIF2zy9KcB7dXJD4ezIwluDIhuc3UN05ZcIs4&e=
> - How do I include `libgfortran.5.dylib`
> - This distributable, when configured shows a file called
`libgfortran.5.dylib`
> - As of this writing, my solution fails because this is missing
when I run the self-hosted R
> - Is there any guidance on how to build a self-hosted R executable for
each operating system?
> - OSX
> - Linux
> - Windows
>
> ===== The long version =====
>
> ----- The Goal -----
>
> Create a self hosted version of R that runs independent of each system
so that I can package and build shiny apps to be distributed to collaborators in
order to evangelize our new statistical method.
>
> ----- The Impetus -----
>
> It is too distracting and too much work to get our collaborators to
configure their environments just to try our statiscal methods we have been
creating.
>
> We have a shiny app built around the statistical methods to simplify the
interface for interaction. Now we want to package it for easy consumption.
>
> It should be as simple as downloading an application and running it.
>
> ----- The Current Progress -----
>
> I have a repo here that is an electron application
>
>
https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_FredHutch_FAUST-5FNextflow-5FDesktop_tree_research_create-5Fr-5F4-5F0-5F2-5Fbuild-2Ddev&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=yLJd2IoXkBkWMIBcuv1k7wCSdpKnUqiEZDh_EJHHU08&m=6GL5xCevUT873KGyFsJhVe44s-QATomA_BHxDVctiOA&s=c_SfZuM1kBF7onYsTkktR5K6DyeLHO_iJU_8tn7XJE4&e=
>
> I can bundle these resources without issues
>
> - Java
> - Nextflow
> - Our Shiny App
>
> ----- Process -----
> The only missing piece is `R`
>
> I have a set of environment variables here:
>
https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_FredHutch_FAUST-5FNextflow-5FDesktop_blob_research_create-5Fr-5F4-5F0-5F2-5Fbuild-2Ddev_electron-5Ffaust-5Fnextflow-5Fdesktop_app_binaries_r_build-5Fenvironment-5Fvariables.env&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=yLJd2IoXkBkWMIBcuv1k7wCSdpKnUqiEZDh_EJHHU08&m=6GL5xCevUT873KGyFsJhVe44s-QATomA_BHxDVctiOA&s=asCEqMQrRxIP9twZSG53oZmV8uK2PnP9iv2nqxw18xc&e=
>
> I `source` the env variables and then I run this script here:
>
`https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_FredHutch_FAUST-5FNextflow-5FDesktop_blob_research_create-5Fr-5F4-5F0-5F2-5Fbuild-2Ddev_electron-5Ffaust-5Fnextflow-5Fdesktop_app_binaries_r_download-5Fr-5Fosx.sh&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=yLJd2IoXkBkWMIBcuv1k7wCSdpKnUqiEZDh_EJHHU08&m=6GL5xCevUT873KGyFsJhVe44s-QATomA_BHxDVctiOA&s=6J4zNQoHoBCICudLqtBbiLk1xpStNSpsrtsnb6-O0Ak&e=
`
>
> I then use the downloaded `R` to install dependencies with these scripts:
>
> -
https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_FredHutch_FAUST-5FNextflow-5FDesktop_blob_research_create-5Fr-5F4-5F0-5F2-5Fbuild-2Ddev_electron-5Ffaust-5Fnextflow-5Fdesktop_app_binaries_r_install-5Fr-5Fdependencies.r&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=yLJd2IoXkBkWMIBcuv1k7wCSdpKnUqiEZDh_EJHHU08&m=6GL5xCevUT873KGyFsJhVe44s-QATomA_BHxDVctiOA&s=irTsih9Pq4R_rzV_6-eF0cAEAGTYbERYDRjnpy-hrgk&e=
> -
https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_FredHutch_FAUST-5FNextflow-5FDesktop_blob_research_create-5Fr-5F4-5F0-5F2-5Fbuild-2Ddev_electron-5Ffaust-5Fnextflow-5Fdesktop_app_binaries_r_install-5Fr-5Fcran-5Fdependencies.r&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=yLJd2IoXkBkWMIBcuv1k7wCSdpKnUqiEZDh_EJHHU08&m=6GL5xCevUT873KGyFsJhVe44s-QATomA_BHxDVctiOA&s=T9dVoi8UTeY8nd4o5ykO4Mzx4jFBpRy5YNUTFaZVbJs&e=
> -
https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_FredHutch_FAUST-5FNextflow-5FDesktop_blob_research_create-5Fr-5F4-5F0-5F2-5Fbuild-2Ddev_electron-5Ffaust-5Fnextflow-5Fdesktop_app_binaries_r_install-5Fr-5Fbiocmanager-5Fdependencies.r&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=yLJd2IoXkBkWMIBcuv1k7wCSdpKnUqiEZDh_EJHHU08&m=6GL5xCevUT873KGyFsJhVe44s-QATomA_BHxDVctiOA&s=AA7yI29L7ET5-HAfUlzguKp28j8N7755H6pCNA4m6uU&e=
>
> And then voilà! It works. Well. It works on my local machine. I can run
the development build, I can package the build, I can run the release after
installing it. Everything works.
>
> Except when I bring it over to a separate computer it doesn't work
because it states that it can't find `libgfortran.5.dylib`. See the attached
screen shot.
>
> ===== The Plea For Guidance =====
>
> I would love any help to figure out how to achieve this. We are very
close to somethng tangibly interesting and it's very deflating to be blocked
because `R` does not have a distributable that can be bundled.
>
> Any guidance or suggestions are greatly appreciated!
>
> Warm Regards,
>
> Logan Knecht
>
> [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
>
https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_r-2Dhelp&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=yLJd2IoXkBkWMIBcuv1k7wCSdpKnUqiEZDh_EJHHU08&m=6GL5xCevUT873KGyFsJhVe44s-QATomA_BHxDVctiOA&s=rXWnxYtLId2lxALBHyFwuyXWU-yTHljjCyH-AZ4alpc&e=
> PLEASE do read the posting guide
https://urldefense.proofpoint.com/v2/url?u=http-3A__www.R-2Dproject.org_posting-2Dguide.html&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=yLJd2IoXkBkWMIBcuv1k7wCSdpKnUqiEZDh_EJHHU08&m=6GL5xCevUT873KGyFsJhVe44s-QATomA_BHxDVctiOA&s=RlRm34djv4feVOhSjRGeswgJsw13nHd02YTERiDBxng&e=
> and provide commented, minimal, self-contained, reproducible code.
>
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