MarcLavielle
commented
7 years ago Done
thank you!
Marc
2017-09-19 10:02 GMT+02:00 Vincent ARANZANA-CLIMENT < notifications@github.com>:
Hello,
I executed the shiny example "Modelling the ADME process with a PK model", available at this URL : http://shiny.webpopix.org/dashboard/pkmodel/ . On the website it works fine, but I then downloaded the server.R and ui.R to try it locally with the idea to customize it later.
At first when i run it as is, i get an error that it doesn't find ReadMe.rmd, i strated by removing any mention of it. Then when I start the application i get the following error :
Warning: Error in simulxunit: MLXTRAN met a syntax error. Parsing ... Incomplete match for: , lexer and parser reached line 6.
After some debugging, I found where it came from, I think that the shiny application on your server is based on an old version of mlxR that accepted a list() as input for the argument "parameter" of the pkmodel() function. Nowadays the input of the "parameter" argument has to be a named vector instead of a list. I thus did minimal modifications to get the app working :
- line 80 : added a vector version of the parameter list with function setNames() p=list(name=param.name,value=param.value) #doesn't work because pkmodel wants a vector instead of a list p_vector <- setNames(param.value, param.name http://param.name)
- line 99 : changed the parameter argument to use the newly created vector as input : res <- pkmodel(time=t.value,treatment=adm,parameter=p_vector)
I hope that it will be useful to others !
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--
Marc Lavielle
CMAP, Ecole Polytechnique91128 Palaiseau Cedex
France Tel: (33) 1 69 33 46 00 (33) 6 37 31 93 05
Marc.Lavielle@inria.fr http://www.cmap.polytechnique.fr/~lavielle
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Hello,
I executed the shiny example "Modelling the ADME process with a PK model", available at this URL : http://shiny.webpopix.org/dashboard/pkmodel/ . On the website it works fine, but I then downloaded the server.R and ui.R to try it locally with the idea to customize it later.
At first when i run it as is, i get an error that it doesn't find ReadMe.rmd, i strated by removing any mention of it. Then when I start the application i get the following error :
Warning: Error in simulxunit: MLXTRAN met a syntax error. Parsing ... Incomplete match for: , lexer and parser reached line 6.After some debugging, I found where it came from, I think that the shiny application on your server is based on an old version of mlxR that accepted a list() as input for the argument "parameter" of the pkmodel() function. Nowadays the input of the "parameter" argument has to be a named vector instead of a list. I thus did minimal modifications to get the app working :
p=list(name=param.name,value=param.value) #doesn't work because pkmodel wants a vector instead of a list p_vector <- setNames(param.value,param.name)res <- pkmodel(time=t.value,treatment=adm,parameter=p_vector)I hope that it will be useful to others !