unused argument (plot.param = Error: list(txt.cex = 1.5, txt.col = input$semilms_color_labels, pt.bg = input$semilms_color_individlms, link.col = input$semilms_color_links, mean.bg = lm_col))

[Sanzhar1991]

Hello I have an error
unused argument (plot.param = list(txt.cex = 1.5, txt.col = input$semilms_color_labels, pt.bg = input$semilms_color_individlms, link.col = input$semilms_color_links, mean.bg = lm_col))

RRPP", version = "2.1.2"
geomorph", version = "4.0.10"
shiny", version = "1.12.1"
shinyjs",version = "2.1.1"
shinyalert", version = "3.1.0"
shinyWidgets", version = "0.6.0"
shinydashboard", version = "0.7.3"
shinythemes", version = "1.2.0"
shinyMatrix", version = "0.8.0"
shinyjqui", version = "0.4.1"
shinymeta", version = "0.2.1"
prettycode", version = "1.1.0"
ape", version = "5.8-1"
stringr", version = "1.6.0"
stringi", version = "1.8.7"
RColorBrewer", version = "1.1-3"
reactlog", version = "1.1.1"
StereoMorph", version = "1.6.7"
shinybusy",version = "0.3.3"

[deanadams]

Hello. I require a bit more information. Can you paste the code you were using when it threw the error? We will first need to replicate the error to diagnose it.

[Sanzhar1991]

Hello! Thank you a lot for your time! I'll explain, this error occurs in my tab window "Define Links and Semi-Landmarks" in the section "Data Prep"

This is the code that I use now:

Run to set up and start Geomorph Shiny App

code copied from the gmshiny website (https://www.gmshiny.com) on May 20, 2022

install.packages("devtools")
devtools::install_github("hadley/devtools")
install.packages("remotes")

This first chunk of code is only necessary for first time users or after the most recent update to gmShiny (most recent update: 2/17/22)
remotes::install_github("INWTlab/shiny-matrix", force = T)
devtools::install_version("RRPP", version = "2.1.2")
devtools::install_version("geomorph", version = "4.0.10")
devtools::install_version("shiny", version = "1.12.1")
devtools::install_version("shinyjs",version = "2.1.1")
devtools::install_version("shinyalert", version = "3.1.0")
devtools::install_version("shinyWidgets", version = "0.6.0")
devtools::install_version("shinydashboard", version = "0.7.3")
devtools::install_version("shinythemes", version = "1.2.0")
devtools::install_version("shinyMatrix", version = "0.8.0")
devtools::install_version("shinyjqui", version = "0.4.1")
devtools::install_version("shinymeta", version = "0.2.1")
devtools::install_version("prettycode", version = "1.1.0")
devtools::install_version("ape", version = "5.8-1")
devtools::install_version("stringr", version = "1.6.0")
devtools::install_version("stringi", version = "1.8.7")
devtools::install_version("RColorBrewer", version = "1.1-3")
devtools::install_version("reactlog", version = "1.1.1")
devtools::install_version("StereoMorph", version = "1.6.7")
devtools::install_version("shinybusy",version = "0.3.3")
devtools::install_version("plotly", version = "4.11.0")
This will take a while and may prompt you to confirm updates to other packages that are
required by the packages we want to install. Just say no to all of them.

Returning users can run this line alone
shiny::runUrl("https://github.com/geomorphR/gmShiny/archive/master.tar.gz")

write('PATH="${RTOOLS40_HOME}\usr\bin;${PATH}"', file = "~/.Renviron", append = TRUE)

[Sanzhar1991]

Hello! Thank you a lot for your time! I'll explain, this error occurs in my tab window "Define Links and Semi-Landmarks" in the section "Data Prep" This is the code that I use now: ### Run to set up and start Geomorph Shiny App ### ## code copied from the gmshiny website (https://www.gmshiny.com) on May 20, 2022 install.packages("devtools") devtools::install_github("hadley/devtools") install.packages("remotes") # This first chunk of code is only necessary for first time users or after the most recent update to gmShiny (most recent update: 2/17/22) remotes::install_github("INWTlab/shiny-matrix", force = T) devtools::install_version("RRPP", version = "2.1.2") devtools::install_version("geomorph", version = "4.0.10") devtools::install_version("shiny", version = "1.12.1") devtools::install_version("shinyjs",version = "2.1.1") devtools::install_version("shinyalert", version = "3.1.0") devtools::install_version("shinyWidgets", version = "0.6.0") devtools::install_version("shinydashboard", version = "0.7.3") devtools::install_version("shinythemes", version = "1.2.0") devtools::install_version("shinyMatrix", version = "0.8.0") devtools::install_version("shinyjqui", version = "0.4.1") devtools::install_version("shinymeta", version = "0.2.1") devtools::install_version("prettycode", version = "1.1.0") devtools::install_version("ape", version = "5.8-1") devtools::install_version("stringr", version = "1.6.0") devtools::install_version("stringi", version = "1.8.7") devtools::install_version("RColorBrewer", version = "1.1-3") devtools::install_version("reactlog", version = "1.1.1") devtools::install_version("StereoMorph", version = "1.6.7") devtools::install_version("shinybusy",version = "0.3.3") devtools::install_version("plotly", version = "4.11.0") ## This will take a while and may prompt you to confirm updates to other packages that are ## required by the packages we want to install. Just say no to all of them. # Returning users can run this line alone shiny::runUrl("https://github.com/geomorphR/gmShiny/archive/master.tar.gz") write('PATH="${RTOOLS40_HOME}\\usr\\bin;${PATH}"', file = "~/.Renviron", append = TRUE) Четверг, Январь 22, 2026 01:20 +05, Dean Adams ***@***.***> писал(а):  deanadams left a comment (geomorphR/gmShiny#7) Hello. I require a bit more information. Can you paste the code you were using when it threw the error? We will first need to replicate the error to diagnose it. — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you authored the thread.Message ID: ***@***.***>[ { ***@***.***": "http://schema.org", ***@***.***": "EmailMessage", "potentialAction": { ***@***.***": "ViewAction", "target": "#7 (comment)", "url": "#7 (comment)", "name": "View Issue" }, "description": "View this Issue on GitHub", "publisher": { ***@***.***": "Organization", "name": "GitHub", "url": "https://github.com" } } ]  

[ebaken]

Hello,

Thank you for providing more information, but I need a few more details to understand the issue.

1. I assume you are a first time user of gmshiny - is that the case?
2. Do any errors appear in your R console when running all the listed code prior to the line that starts shiny::runURL?
3. If yes to 1 and no to 2, are you uploading any data before navigating to the "Define Links and Semi-Landmarks" page?

Best,
Erica

[Sanzhar1991]

Hello! Thank you for your support!

1. No, it's not the first time I've used gmshiny. There have been no such errors before, and I could work safely. I hadn't used the R and code for a long time, and when I updated everything, an error occurred.
2. No, when I run the code, there is no errors.
3. Yes, I upload my data on the TPS of bear skulls. This mistake did not occur before in "Define Links and Semi-Landmarks" when I was working previously.

All the best, Sanzhar

[ebaken]

Hi Sanzhar, Happy to help! Let’s take this offline so as not to flood others’ inboxes. Please email my personal account ***@***.***) with your data attached and any settings or buttons you’ve pushed before navigating to the “define links…” page. Thanks, Erica

…

On Fri, Jan 23, 2026 at 10:41 PM Sanzhar1991 ***@***.***> wrote: *Sanzhar1991* left a comment (geomorphR/gmShiny#7) <#7 (comment)> Hello! Thank you for your support! 1. No, it's not the first time I've used gmshiny. There have been no such errors before, and I could work safely. I hadn't used the R and code for a long time, and when I updated everything, an error occurred. 2. No, when I run the code, there is no errors. 3. Yes, I upload my data on the TPS of bear skulls. This mistake did not occur before in "Define Links and Semi-Landmarks" when I was working previously. All the best, Sanzhar — Reply to this email directly, view it on GitHub <#7 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AFBXTGMJLOBPCPMRSQ7EQVD4ILZXHAVCNFSM6AAAAACSLRIBNWVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZTOOJTG44DMNJXG4> . You are receiving this because you commented.Message ID: ***@***.***>

[Sanzhar1991]

Hi Erica! Sorry I didn't see your email!