Isse with ggforest

[GenOnyx]

Hi, I am trying to generate the forest plot for TCGA BRCA data. My data does not have any NA values (checked thoroughly).

The commands I am using are:
bigmodel = coxph(Surv(time, event) ~ Gender + AJCC.Stage + Tumor,
data = info)
Call:
coxph(formula = Surv(time, event) ~ Gender + AJCC.Stage + Tumor,
data = info)

                       coef  exp(coef)   se(coef)      z        p

GenderMALE -1.551e+01 1.830e-07 3.125e+03 -0.005 0.996039
AJCC.StageStage I -1.520e+00 2.186e-01 5.849e-01 -2.599 0.009341
AJCC.StageStage IA -2.641e+00 7.126e-02 7.133e-01 -3.703 0.000213
AJCC.StageStage IB -1.261e+00 2.833e-01 1.084e+00 -1.164 0.244355
AJCC.StageStage II -1.633e+00 1.953e-01 7.492e-01 -2.180 0.029266
AJCC.StageStage IIA -1.467e+00 2.307e-01 5.648e-01 -2.597 0.009402
AJCC.StageStage IIB -1.557e+00 2.108e-01 6.319e-01 -2.463 0.013760
AJCC.StageStage III -1.504e+00 2.222e-01 9.006e-01 -1.670 0.094896
AJCC.StageStage IIIA -1.435e+00 2.380e-01 7.180e-01 -1.999 0.045594
AJCC.StageStage IIIB -1.130e+00 3.231e-01 9.268e-01 -1.219 0.222859
AJCC.StageStage IIIC 1.463e-01 1.158e+00 7.747e-01 0.189 0.850167
AJCC.StageStage IV -5.187e-01 5.953e-01 6.890e-01 -0.753 0.451568
AJCC.StageStage X -1.693e+01 4.448e-08 8.008e+03 -0.002 0.998313
TumorT2 -6.959e-02 9.328e-01 4.575e-01 -0.152 0.879101
TumorT3 -1.059e-01 8.995e-01 5.817e-01 -0.182 0.855506
TumorT4 -2.592e-01 7.716e-01 8.137e-01 -0.319 0.750045
TumorTX -1.341e+00 2.615e-01 8.280e-01 -1.620 0.105232

Likelihood ratio test=27.22 on 17 df, p=0.05489
n= 791, number of events= 85
(27 observations deleted due to missingness)

And then when I use the following command:

ggforest(bigmodel, data = info)
Error in axisTicks(rangeb/2, log = TRUE, nint = 7) :
log - axis(), 'at' creation, LARGE range: invalid {xy}axp or par; nint=7
axp[0:1]=(1e-307,1e+308), usr[0:1]=(0,inf); i=615, ni=87

Steps to reproduce the problem

session_info()

─ Session info ────────────────────────────────────────────────────────────────────────────
setting value
version R version 4.1.1 (2021-08-10)
os Ubuntu 20.04.4 LTS
system x86_64, linux-gnu
ui RStudio
language en_IN:en
collate en_IN.UTF-8
ctype en_IN.UTF-8
tz Asia/Kolkata
date 2022-05-27
rstudio 1.4.1717 Juliet Rose (desktop)
pandoc 2.5 @ /usr/bin/pandoc

─ Packages ────────────────────────────────────────────────────────────────────────────────
package * version date (UTC) lib source
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assertthat 0.2.1 2019-03-21 [1] CRAN (R 4.1.1)
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carData 3.0-5 2022-01-06 [1] CRAN (R 4.1.1)
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cli 3.3.0 2022-04-25 [1] CRAN (R 4.1.1)
colorspace 2.0-3 2022-02-21 [1] CRAN (R 4.1.1)
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data.table 1.14.2 2021-09-27 [1] CRAN (R 4.1.1)
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survminer * 0.4.9 2022-05-26 [1] Github (54f0564)
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[1] /home/user/R/x86_64-pc-linux-gnu-library/4.1
[2] /usr/local/lib/R/site-library
[3] /usr/lib/R/site-library
[4] /usr/lib/R/library

[rschauner]

Hi,

I'm not a maintainer of this package, but you may want to try using a fork of this repo for a PR I made (#582) that I think would solve your issue.

You should be able to install it using

if (require("remotes")) install.packages("remotes")
remotes::install_github("rschauner/survminer")

Hopefully this helps