kmezhoud / cancer

:chart: The package is user friendly interface based on the cgdsr and other modeling packages to explore, compare, and analyse all available Cancer Data (Clinical data, Gene Mutation, Gene Methylation, Gene Expression, Protein Phosphorylation, Copy Number Alteration) hosted by the Computational Biology Center at Memorial-Sloan-Kettering Cancer Center (MSKCC).

Hi there 👋

cancer's Issues

The install is frozen during: byte-compile and prepare package for lazy loading

the suspected causes of this issue come from two factors:

1. During canceR install tcltk2 induces and the insyall is frozen at step byte-compile and prepare package for lazy loading

error reading package index file /usr/local/lib/R/site-library/tcltk2/tklibs/ttktheme_radiance/pkgIndex.tcl: too many nested evaluations (infinite loop?)
error reading package index file /usr/local/lib/R/site-library/tcltk2/tklibs/ttktheme_clearlooks/pkgIndex.tcl: too many nested evaluations (infinite loop?)

If the tcltk2 package is omitted, the installation continues and ends with warning messages

Warning message:
In fun(libname, pkgname) : couldn't connect to display ":0"
Warning: loading Rplot failed

2. In this case, canceR could not be start with warning message at the starting. After tracking back the warning message, it turns out that tktoplevel is the cause.

 tt <-tcltk::tktoplevel()
Error in structure(.External(.C_dotTclObjv, objv), class = "tclObj") : 
  [tcl] invalid command name "toplevel".

canceR - missing genetic profiles

Hello Dr. Mezhoud,

I have been trying to explore your canceR package, but the genetic profiles do not load when the cases load. Am I missing a step?

Please see the attached screenshot.
Error in .Tcl.args.objv(...) : object 'tl' not found
Thank you for your time.

Sincerely,
Stephanie Perkail