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Trying to load R software to visR #8

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Lumskie opened this issue Jun 16, 2021 · 0 comments
Open

Trying to load R software to visR #8

Lumskie opened this issue Jun 16, 2021 · 0 comments

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@Lumskie
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Lumskie commented Jun 16, 2021

I was trying to open Count Ranger app using visR.But when i try to run the programme it is showing 'R is in bad state.Restart rserve?'I tried to define path to R.exe file in .bat file of visR.But that didnt resolve the issue.In the powershell,I found the following error.Anyone have any insight into it?

C:\Users\mypc\Desktop\Seurat_trialrun\vis>java -Drpath="C:\Program Files\R\R-3.4.1\bin\R.exe" -jar VisR.jar
Checking for updates
Response Code : 200
Up to date.
Fetching user directory... INFO [2021-06-16 14:09:24,992] [DirectoryManager.java:139] [main] Application Directory: C:\Users\mypc\VisR
java.awt.Dimension[width=300,height=650]
java.awt.Dimension[width=145,height=40]
java.awt.Dimension[width=350,height=325]
C:\Program Files (x86)\Common Files\Oracle\Java\javapath;C:\WINDOWS\Sun\Java\bin;C:\WINDOWS\system32;C:\WINDOWS;C:\Program Files (x86)\Common Files\Oracle\Java\javapath;C:\Windows\system32;C:\Windows;C:\Windows\System32\Wbem;C:\Windows\System32\WindowsPowerShell\v1.0;C:\WINDOWS\system32;C:\WINDOWS;C:\WINDOWS\System32\Wbem;C:\WINDOWS\System32\WindowsPowerShell\v1.0;C:\Users\mypc\Desktop\miktex\miktex\bin\x64;C:\WINDOWS\System32\OpenSSH;C:\Program Files\MATLAB\R2019b\bin;C:\Users\mypc\AppData\Local\Microsoft\WindowsApps;C:\Users\mypc\AppData\Local\Programs\MiKTeX 2.9\miktex\bin\x64;;.
INFO [2021-06-16 14:09:27,703] [StartRserve.java:335] [main] First connect try failed with: Cannot connect: Connection refused: connect
INFO [2021-06-16 14:09:27,704] [StartRserve.java:148] [main] failed to start Rserve process with Cannot run program "C:\Program Files\R\R-3.4.1\bin\Rscript.exe": CreateProcess error=2, The system cannot find the file specified
INFO [2021-06-16 14:09:27,705] [StartRserve.java:185] [main] Windows: query registry to find where R is installed ...
INFO [2021-06-16 14:09:27,705] [StartRserve.java:189] [main] reg query HKLM\Software\R-core\R
INFO [2021-06-16 14:09:27,774] [StartRserve.java:58] [Thread-3] R InstallPath = C:\Program Files\R\R-4.1.0
INFO [2021-06-16 14:09:27,781] [StartRserve.java:116] [main] waiting for Rserve to start ... (java.lang.ProcessImpl@638011)
INFO [2021-06-16 14:09:27,782] [StartRserve.java:146] [main] let us try to connect ...
INFO [2021-06-16 14:09:28,871] [StartRserve.java:61] [Thread-5] Rserve> _
INFO [2021-06-16 14:09:28,871] [StartRserve.java:61] [Thread-5] Rserve> platform x86_64-w64-mingw32
INFO [2021-06-16 14:09:28,872] [StartRserve.java:61] [Thread-5] Rserve> arch x86_64
INFO [2021-06-16 14:09:28,872] [StartRserve.java:61] [Thread-5] Rserve> os mingw32
INFO [2021-06-16 14:09:28,872] [StartRserve.java:61] [Thread-5] Rserve> system x86_64, mingw32
INFO [2021-06-16 14:09:28,872] [StartRserve.java:61] [Thread-5] Rserve> status
INFO [2021-06-16 14:09:28,872] [StartRserve.java:61] [Thread-5] Rserve> major 4
INFO [2021-06-16 14:09:28,872] [StartRserve.java:61] [Thread-5] Rserve> minor 1.0
INFO [2021-06-16 14:09:28,872] [StartRserve.java:61] [Thread-5] Rserve> year 2021
INFO [2021-06-16 14:09:28,872] [StartRserve.java:61] [Thread-5] Rserve> month 05
INFO [2021-06-16 14:09:28,873] [StartRserve.java:61] [Thread-5] Rserve> day 18
INFO [2021-06-16 14:09:28,873] [StartRserve.java:61] [Thread-5] Rserve> svn rev 80317
INFO [2021-06-16 14:09:28,873] [StartRserve.java:61] [Thread-5] Rserve> language R
INFO [2021-06-16 14:09:28,873] [StartRserve.java:61] [Thread-5] Rserve> version.string R version 4.1.0 (2021-05-18)
INFO [2021-06-16 14:09:28,874] [StartRserve.java:61] [Thread-5] Rserve> nickname Camp Pontanezen
INFO [2021-06-16 14:09:28,874] [StartRserve.java:61] [Thread-5] Rserve> [1] "getwd(): C:/Users/mypc/Desktop/Seurat_trialrun/vis"
INFO [2021-06-16 14:09:28,917] [StartRserve.java:61] [Thread-4] Rserve> Error in loadNamespace(x) : there is no package called 'assertthat'
INFO [2021-06-16 14:09:28,922] [StartRserve.java:61] [Thread-4] Rserve> Calls: source ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
INFO [2021-06-16 14:09:28,924] [StartRserve.java:61] [Thread-4] Rserve> Execution halted
INFO [2021-06-16 14:09:29,798] [StartRserve.java:159] [main] Try failed with: Cannot connect: Connection refused: connect
INFO [2021-06-16 14:09:32,346] [StartRserve.java:159] [main] Try failed with: Cannot connect: Connection refused: connect
INFO [2021-06-16 14:09:34,883] [StartRserve.java:159] [main] Try failed with: Cannot connect: Connection refused: connect
INFO [2021-06-16 14:09:37,406] [StartRserve.java:159] [main] Try failed with: Cannot connect: Connection refused: connect
INFO [2021-06-16 14:09:39,926] [StartRserve.java:159] [main] Try failed with: Cannot connect: Connection refused: connect
Cannot load R.

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