James-Thorson
commented
8 years ago Please try again running the slightly modified version of Example-Simple.R. The previous version was pointing at the location of the TMB CPP file on my machine, rather than the general version. I also added an informative warning about this problem to Build_TMB_Fn
jim
On Fri, Jul 1, 2016 at 11:27 AM, BranBlack3125 notifications@github.com wrote:
Hello everyone,
The following is a problem I've encountered while attempting to run the Example-simple script posted for geostatistical_delta-GLMM. Below I've copied a post on this issue that I originally submitted to StackOverflow:
I am a complete R novice, and have been attempting to run the following package/model in RStudio 3.2.4 ( https://github.com/nwfsc-assess/geostatistical_delta-GLMM). The specific script I am attempting to run can be found here: ( https://github.com/nwfsc-assess/geostatistical_delta-GLMM/blob/master/examples/Example--simple.R). The script (second link) is an example code posted online to help people learn how to run this model (first link). It references several datasets, which I have saved in the location indicated by the TmbDIR variable in my example code below. I have been getting the following error once the script gets to the "Make and Run TMB model" section" (sorry, I don't see any labels for line number - this error occurs about 3/4 of the way through the script):
Make TMB object
TmbDir = "C:/Bran/HUD/nwsfc_assess_geostatistical_delta_GLMM/geostatistical_delta-GLMM-master/data/" TmbList = Build_TMB_Fn("TmbData"=TmbData, "TmbDir"=TmbDir, "RunDir"=DateFile, "Version"=Version, "RhoConfig"=RhoConfig, "VesselConfig"=VesselConfig, "loc_x"=Spatial_List$loc_x) Error in file(con, "r") : cannot open the connection In addition: Warning message: In file(con, "r") : cannot open file 'geo_index_v4a.cpp': No such file or directory From there on out in that section of the script, I get multiple errors warning that various objects the script is supposed to be accessing have not been found.
I have attempted the following for troubleshooting: I installed RTools, and reinstalled INLA and TMB (the second to are called on by the script). From my Google search on the error I also saw that many people with this error have used "setInternet2(TRUE)" and solved the problem, but that didn't work in my case.
Unfortunately, as I mentioned earlier, I am a complete novice at R and don't have any good ideas on what to try next - I imagine it's quite likely this error is due to simple user error that I'm simply not experienced enough to spot.
Thank you!
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BranBlack3125
Hello everyone,
The following is a problem I've encountered while attempting to run the Example-simple script posted for geostatistical_delta-GLMM. Below I've copied a post on this issue that I originally submitted to StackOverflow:
I am a complete R novice, and have been attempting to run the following package/model in RStudio 3.2.4 (https://github.com/nwfsc-assess/geostatistical_delta-GLMM). The specific script I am attempting to run can be found here: (https://github.com/nwfsc-assess/geostatistical_delta-GLMM/blob/master/examples/Example--simple.R). The script (second link) is an example code posted online to help people learn how to run this model (first link). It references several datasets, which I have saved in the location indicated by the TmbDIR variable in my example code below. I have been getting the following error once the script gets to the "Make and Run TMB model" section" (sorry, I don't see any labels for line number - this error occurs about 3/4 of the way through the script):
Make TMB object
TmbDir = "C:/Bran/HUD/nwsfc_assess_geostatistical_delta_GLMM/geostatistical_delta-GLMM-master/data/" TmbList = Build_TMB_Fn("TmbData"=TmbData, "TmbDir"=TmbDir, "RunDir"=DateFile, "Version"=Version, "RhoConfig"=RhoConfig, "VesselConfig"=VesselConfig, "loc_x"=Spatial_List$loc_x) Error in file(con, "r") : cannot open the connection In addition: Warning message: In file(con, "r") : cannot open file 'geo_index_v4a.cpp': No such file or directory From there on out in that section of the script, I get multiple errors warning that various objects the script is supposed to be accessing have not been found.
I have attempted the following for troubleshooting: I installed RTools, and reinstalled INLA and TMB (the second to are called on by the script). From my Google search on the error I also saw that many people with this error have used "setInternet2(TRUE)" and solved the problem, but that didn't work in my case.
Unfortunately, as I mentioned earlier, I am a complete novice at R and don't have any good ideas on what to try next - I imagine it's quite likely this error is due to simple user error that I'm simply not experienced enough to spot.
Thank you!