Crash of the app at the tab "PC Plot"

[MichailKnauel]

I get following error when I switch on the tab "PC plot" of your App.

When I look into the errorconsole of the browser I see following code:

Pango-WARNING **: Invalid UTF-8 string passed to pango_layout_set_text() Do you have an idea what the problem could be?

The tabs before the "PC Plot" work properly.

Cheers, Michail

[benmarwick]

Interesting, do you have any foreign language characters or other exotic characters in your data? Can you share some of your data with me so I can try to reproduce the problem?

[MichailKnauel]

I use the iris dataset for testing the app. The problem above I already figured out today. I used this file: pcatest5.txt After deleting the last column with the text the error stopped. But I have a knew one... First of all the file I use at the moment: pcatest6tab.txt I get following code in the developer console of chrome:

Listening on http://127.0.0.1:45188

Attaching package: ‘DT’

The following objects are masked from ‘package:shiny’:

    dataTableOutput, renderDataTable

Attaching package: ‘psych’

The following objects are masked from ‘package:ggplot2’:

    %+%, alpha

Loading required package: lattice
Loading required package: survival
Loading required package: Formula

Attaching package: ‘Hmisc’

The following object is masked from ‘package:psych’:

    describe

The following objects are masked from ‘package:base’:

    format.pval, round.POSIXt, trunc.POSIXt, units

Loading required package: bit
Attaching package bit
package:bit (c) 2008-2012 Jens Oehlschlaegel (GPL-2)
creators: bit bitwhich
coercion: as.logical as.integer as.bit as.bitwhich which
operator: ! & | xor != ==
querying: print length any all min max range sum summary
bit access: length<- [ [<- [[ [[<-
for more help type ?bit

Attaching package: ‘bit’

The following object is masked from ‘package:psych’:

    keysort

The following object is masked from ‘package:base’:

    xor

Loading required package: ff
Attaching package ff
- getOption("fftempdir")=="/tmp/Rtmps2Sj7r"

- getOption("ffextension")=="ff"

- getOption("ffdrop")==TRUE

- getOption("fffinonexit")==TRUE

- getOption("ffpagesize")==65536

- getOption("ffcaching")=="mmnoflush"  -- consider "ffeachflush" if your system stalls on large writes

- getOption("ffbatchbytes")==16777216 -- consider a different value for tuning your system

- getOption("ffmaxbytes")==536870912 -- consider a different value for tuning your system

Attaching package: ‘ff’

The following objects are masked from ‘package:bit’:

    clone, clone.default, clone.list

The following objects are masked from ‘package:utils’:

    write.csv, write.csv2

The following objects are masked from ‘package:base’:

    is.factor, is.ordered

Loading required package: ffbase

Attaching package: ‘ffbase’

The following objects are masked from ‘package:ff’:

    [<-.ff, [.ff, [<-.ffdf, [.ffdf

The following objects are masked from ‘package:base’:

    %in%, table

Standard deviations are plot by default. See argument numMode of plot.tabplot.
Warning in run(timeoutMs) : data length exceeds size of matrix
Stack trace (innermost first):
    78: [.data.frame
    77: [
    76: fix_data
    75: ggpairs
    74: renderPlot [/srv/shiny-server/Interactive_PCA_Explorer-master/server.R#61]
    66: output$corr_plot
     1: runApp
Warning in run(timeoutMs) :
  Error in [.data.frame: undefined columns selected
Error: C stack usage  7972992 is too close to the limit

Cheers, Michail

[benmarwick]

It seems that your data files are tab separated, not comma separated. For example, when I read them in to R, this is what I see:

dat <- read.csv("pcatest5.txt")
> dat
    Sepal.length.Sepal.width.Petal.length.Petal.width.Species
1                                   5.1\t3.5\t1.4\t0.2\tI. setosa
2                                     4.9\t3\t1.4\t0.2\tI. setosa
3                                   4.7\t3.2\t1.3\t0.2\tI. setosa
4                                   4.6\t3.1\t1.5\t0.2\tI. setosa
5                                     5\t3.6\t1.4\t0.2\tI. setosa
6                                   5.4\t3.9\t1.7\t0.4\tI. setosa
7                                   4.6\t3.4\t1.4\t0.3\tI. setosa
8                                     5\t3.4\t1.5\t0.2\tI. setosa

etc.

The app currently only accepts CSV files, so I think that's the main reason why you're getting errors.

To read your tab-separated files into R, you can use read.delim instead of read.csv